Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 ID=Chr06-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 51074515
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 971674 characters in sequence are not A, C, G, or T
File 7 of 168
Found at i:1894298 original size:29 final size:29
Alignment explanation
Indices: 1894282--1894339 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
1894272 CATTTTCATT
*
1894282 ATTTTCTTTATTATTTTAATATTATTATC
1 ATTTTCTTTATTATTTTAACATTATTATC
**
1894311 ATTTTCTTTATTATTATTATTATTATTAT
1 ATTTTCTTTATTATT-TTAACATTATTAT
1894340 TATTGCTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
29 15 0.56
30 12 0.44
ACGTcount: A:0.28, C:0.05, G:0.00, T:0.67
Consensus pattern (29 bp):
ATTTTCTTTATTATTTTAACATTATTATC
Found at i:1894307 original size:3 final size:3
Alignment explanation
Indices: 1894289--1894343 Score: 60
Period size: 3 Copynumber: 18.7 Consensus size: 3
1894279 ATTATTTTCT
* * *
1894289 TTA TTA TT- TTA ATA TTA TTA TCA TT- TTCT TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA
1894333 TTA TTA TTA TT
1 TTA TTA TTA TT
1894344 GCTTTTATAT
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
2 4 0.09
3 38 0.86
4 2 0.05
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:1894887 original size:5 final size:5
Alignment explanation
Indices: 1894860--1894926 Score: 79
Period size: 5 Copynumber: 14.2 Consensus size: 5
1894850 TTTTTATGTT
*
1894860 TTATA -TATA TTAT- TT-TA TTATA TAATA -TATA TTATA TTATA TTATA
1 TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA
* *
1894906 TTATA TTGTT TTATA TTATA T
1 TTATA TTATA TTATA TTATA T
1894927 AAATTAAATA
Statistics
Matches: 52, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
3 1 0.02
4 11 0.21
5 40 0.77
ACGTcount: A:0.37, C:0.00, G:0.01, T:0.61
Consensus pattern (5 bp):
TTATA
Found at i:1894887 original size:22 final size:22
Alignment explanation
Indices: 1894862--1894928 Score: 75
Period size: 22 Copynumber: 3.0 Consensus size: 22
1894852 TTTATGTTTT
1894862 ATATATATTATTTTATTATATA
1 ATATATATTATTTTATTATATA
*
1894884 ATATATATTATATTATATTATATT
1 ATATATATTAT-TT-TATTATATA
* *
1894908 ATAT-TGTT-TTATATTATATA
1 ATATATATTATTTTATTATATA
1894928 A
1 A
1894929 ATTAAATAGA
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
20 9 0.23
21 1 0.03
22 12 0.31
23 5 0.13
24 12 0.31
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.58
Consensus pattern (22 bp):
ATATATATTATTTTATTATATA
Found at i:1902913 original size:19 final size:19
Alignment explanation
Indices: 1902872--1902913 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
1902862 AACCTACTTT
*
1902872 TTTTATTATTTTTTGCTTT
1 TTTTATTATTTTTTGCTTG
1902891 TTTTATTATTTTCTTG-TTG
1 TTTTATTATTTT-TTGCTTG
1902910 TTTT
1 TTTT
1902914 TCACTATTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 18 0.86
20 3 0.14
ACGTcount: A:0.10, C:0.05, G:0.07, T:0.79
Consensus pattern (19 bp):
TTTTATTATTTTTTGCTTG
Found at i:1906568 original size:43 final size:44
Alignment explanation
Indices: 1906463--1906568 Score: 130
Period size: 44 Copynumber: 2.4 Consensus size: 44
1906453 ATGTGTTATC
* * *
1906463 TGTAAGACCACGTCTGGGACGTTGGCATCGACTTGTGACTTACG
1 TGTAAGACCACGTCTGGGAAGTTGGCATCCACTTGTGACTTACA
1906507 TGTAAGACC-CTGTCTGGGATAG-TGGCATCCA-TATGTGA-TTACA
1 TGTAAGACCAC-GTCTGGGA-AGTTGGCATCCACT-TGTGACTTACA
1906550 TGTAAGACCACGTCTGGGA
1 TGTAAGACCACGTCTGGGA
1906569 CGATGGCGTT
Statistics
Matches: 55, Mismatches: 3, Indels: 9
0.82 0.04 0.13
Matches are distributed among these distances:
43 23 0.42
44 31 0.56
45 1 0.02
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (44 bp):
TGTAAGACCACGTCTGGGAAGTTGGCATCCACTTGTGACTTACA
Found at i:1910016 original size:9 final size:9
Alignment explanation
Indices: 1910002--1910151 Score: 51
Period size: 9 Copynumber: 16.2 Consensus size: 9
1909992 TGTCTGTTAT
1910002 TTATGTATA
1 TTATGTATA
1910011 TTATGTAT-
1 TTATGTATA
* *
1910019 GTATAT-TA
1 TTATGTATA
* *
1910027 GTATGGATA
1 TTATGTATA
* *
1910036 TTATATATG
1 TTATGTATA
1910045 TTATGTAGTA
1 TTATGTA-TA
*
1910055 -TAT-TACTGT
1 TTATGTA-T-A
*
1910064 TTATGTATT
1 TTATGTATA
**
1910073 TTATGTACG
1 TTATGTATA
*
1910082 TTATGTTTA
1 TTATGTATA
*
1910091 TTAT-TGT-
1 TTATGTATA
1910098 TTATGTATATCA
1 TTATG--TAT-A
1910110 TGTATGTATA
1 T-TATGTATA
1910120 TTACTGTTTATA
1 TTA-TG--TATA
*
1910132 TTATGTATG
1 TTATGTATA
1910141 TTATGTATA
1 TTATGTATA
1910150 TT
1 TT
1910152 GCAATTTATA
Statistics
Matches: 105, Mismatches: 21, Indels: 30
0.67 0.13 0.19
Matches are distributed among these distances:
7 5 0.05
8 13 0.12
9 57 0.54
10 11 0.10
11 7 0.07
12 8 0.08
13 4 0.04
ACGTcount: A:0.27, C:0.03, G:0.15, T:0.55
Consensus pattern (9 bp):
TTATGTATA
Found at i:1910031 original size:25 final size:25
Alignment explanation
Indices: 1910003--1910055 Score: 72
Period size: 25 Copynumber: 2.1 Consensus size: 25
1909993 GTCTGTTATT
* *
1910003 TATGTATATTATGTATGTATAT-TAG
1 TATGGATATTATATATGT-TATGTAG
1910028 TATGGATATTATATATGTTATGTAG
1 TATGGATATTATATATGTTATGTAG
1910053 TAT
1 TAT
1910056 ATTACTGTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 3 0.12
25 22 0.88
ACGTcount: A:0.32, C:0.00, G:0.17, T:0.51
Consensus pattern (25 bp):
TATGGATATTATATATGTTATGTAG
Found at i:1910036 original size:12 final size:13
Alignment explanation
Indices: 1909998--1910141 Score: 78
Period size: 13 Copynumber: 11.8 Consensus size: 13
1909988 AGTATGTCTG
*
1909998 TTATTTATGTATA
1 TTATGTATGTATA
1910011 TTATGTATGTATA
1 TTATGTATGTATA
*
1910024 TTA-GTATGGATA
1 TTATGTATGTATA
*
1910036 TTA--TA--TATG
1 TTATGTATGTATA
1910045 TTATGTA-GTATA
1 TTATGTATGTATA
* * *
1910057 TTACTGTTTATGTA
1 TTA-TGTATGTATA
**
1910071 TT-T-TATGTACG
1 TTATGTATGTATA
1910082 TTATGT-T-TATTA
1 TTATGTATGTA-TA
* *
1910094 TTGTTTATGTATA
1 TTATGTATGTATA
*
1910107 TCATGTATGTATA
1 TTATGTATGTATA
1910120 TTACTGT-T-TATA
1 TTA-TGTATGTATA
1910132 TTATGTATGT
1 TTATGTATGT
1910142 TATGTATATT
Statistics
Matches: 97, Mismatches: 21, Indels: 26
0.67 0.15 0.18
Matches are distributed among these distances:
9 5 0.05
11 14 0.14
12 32 0.33
13 36 0.37
14 10 0.10
ACGTcount: A:0.27, C:0.03, G:0.15, T:0.56
Consensus pattern (13 bp):
TTATGTATGTATA
Found at i:1910058 original size:21 final size:22
Alignment explanation
Indices: 1909996--1910059 Score: 67
Period size: 25 Copynumber: 2.8 Consensus size: 22
1909986 CTAGTATGTC
* *
1909996 TGTTATTTATGTATATTATGTA
1 TGTTATGTATGTATATTATATA
*
1910018 TGTATATTAGTATGGATATTATATA
1 TGT-TA-T-GTATGTATATTATATA
1910043 TGTTATGTA-GTATATTA
1 TGTTATGTATGTATATTA
1910060 CTGTTTATGT
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
21 7 0.20
22 6 0.17
23 3 0.09
24 3 0.09
25 16 0.46
ACGTcount: A:0.31, C:0.00, G:0.16, T:0.53
Consensus pattern (22 bp):
TGTTATGTATGTATATTATATA
Found at i:1910148 original size:30 final size:30
Alignment explanation
Indices: 1910033--1910171 Score: 111
Period size: 30 Copynumber: 4.4 Consensus size: 30
1910023 ATTAGTATGG
*
1910033 ATATTATATATGTTATGTAGTATATTACTGTTT
1 ATATTATGTATGTTA--T-GTATATTACTGTTT
* * *
1910066 ATGTATTTTATGTACGTTATGTTTATTATTGTTT
1 A--TA--TTATGTATGTTATGTATATTACTGTTT
* *
1910100 ATGTATAT-CATG-TATGTATATTACTGTTT
1 ATAT-TATGTATGTTATGTATATTACTGTTT
* **
1910129 ATATTATGTATGTTATGTATATTGCAATTT
1 ATATTATGTATGTTATGTATATTACTGTTT
1910159 ATATTATGTATGT
1 ATATTATGTATGT
1910172 GTAGTTTTTT
Statistics
Matches: 85, Mismatches: 14, Indels: 17
0.73 0.12 0.15
Matches are distributed among these distances:
28 3 0.04
29 21 0.25
30 30 0.35
31 3 0.04
32 1 0.01
33 1 0.01
34 13 0.15
35 3 0.04
37 10 0.12
ACGTcount: A:0.27, C:0.04, G:0.14, T:0.55
Consensus pattern (30 bp):
ATATTATGTATGTTATGTATATTACTGTTT
Found at i:1911639 original size:71 final size:71
Alignment explanation
Indices: 1911523--1911661 Score: 278
Period size: 71 Copynumber: 2.0 Consensus size: 71
1911513 TTGAGAAAAG
1911523 GGTTTATTGTAACGCCCCAAAATTTAAGTCTCTAATTTTTGTATGTTTTGTCACAAATTGCTTGT
1 GGTTTATTGTAACGCCCCAAAATTTAAGTCTCTAATTTTTGTATGTTTTGTCACAAATTGCTTGT
1911588 TTGTTT
66 TTGTTT
1911594 GGTTTATTGTAACGCCCCAAAATTTAAGTCTCTAATTTTTGTATGTTTTGTCACAAATTGCTTGT
1 GGTTTATTGTAACGCCCCAAAATTTAAGTCTCTAATTTTTGTATGTTTTGTCACAAATTGCTTGT
1911659 TTG
66 TTG
1911662 CTTCATTGGT
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 68 1.00
ACGTcount: A:0.23, C:0.14, G:0.16, T:0.47
Consensus pattern (71 bp):
GGTTTATTGTAACGCCCCAAAATTTAAGTCTCTAATTTTTGTATGTTTTGTCACAAATTGCTTGT
TTGTTT
Found at i:1913200 original size:81 final size:80
Alignment explanation
Indices: 1913092--1913494 Score: 508
Period size: 81 Copynumber: 5.0 Consensus size: 80
1913082 TGTGAATTGG
*
1913092 GGGTAAAATTATCGAAATACTCC-CGAAGGGTAAAATTATCGAAATACCCTCGAAGGGTAAAATT
1 GGGTAAAATTATCGAAATAC-CCTCGAAGGGTAAAATTA-CAAAATACCCTCGAAGGGTAAAATT
*
1913156 ACCGAAATACCCGC-AAA
64 ACTGAAATACCC-CTAAA
* *
1913173 GAGTAAAATTATCGAAATACCCTCGAAGGGTAAAATTACCGAAATACCCTCGAAGGGTAAAATTA
1 GGGTAAAATTATCGAAATACCCTCGAAGGGTAAAATTA-CAAAATACCCTCGAAGGGTAAAATTA
1913238 CTGAAATACCCCTAAA
65 CTGAAATACCCCTAAA
* * *
1913254 GGGTAAAATTATCGAAATACCCTCGAAGGGTAAAAGTACTAAAATACCCTCAAAAGGTAAAATTA
1 GGGTAAAATTATCGAAATACCCTCGAAGGGTAAAATTAC-AAAATACCCTCGAAGGGTAAAATTA
*
1913319 CTAAAATACCCCTAAA
65 CTGAAATACCCCTAAA
* * *
1913335 GGGTAAAATTACCGAAATACCC-CTAAAGGGTAAAATTACTAAAATACCCTCGAAAGGTAAAATT
1 GGGTAAAATTATCGAAATACCCTC-GAAGGGTAAAATTAC-AAAATACCCTCGAAGGGTAAAATT
* *
1913399 ACTGAAATA-CCTTCGAA
64 ACTGAAATACCCCT-AAA
* * * * * *
1913416 GGGTAAAATTACCGAAATACCCTCAAAAGCTAAAATTACCAAAATACCCTCAAAGGGTAAAATGA
1 GGGTAAAATTATCGAAATACCCTCGAAGGGTAAAATTA-CAAAATACCCTCGAAGGGTAAAATTA
**
1913481 CTGTTATACCCCTA
65 CTGAAATACCCCTA
1913495 GGAGTGGAAA
Statistics
Matches: 289, Mismatches: 25, Indels: 16
0.88 0.08 0.05
Matches are distributed among these distances:
80 8 0.03
81 276 0.96
82 5 0.02
ACGTcount: A:0.44, C:0.20, G:0.15, T:0.21
Consensus pattern (80 bp):
GGGTAAAATTATCGAAATACCCTCGAAGGGTAAAATTACAAAATACCCTCGAAGGGTAAAATTAC
TGAAATACCCCTAAA
Found at i:1913491 original size:27 final size:27
Alignment explanation
Indices: 1913092--1913483 Score: 433
Period size: 27 Copynumber: 14.5 Consensus size: 27
1913082 TGTGAATTGG
*
1913092 GGGTAAAATTA-TCGAAATACTCC-CGAA
1 GGGTAAAATTACT-GAAATAC-CCTCAAA
*
1913119 GGGTAAAATTA-TCGAAATACCCTCGAA
1 GGGTAAAATTACT-GAAATACCCTCAAA
* *
1913146 GGGTAAAATTACCGAAATACCCGCAAA
1 GGGTAAAATTACTGAAATACCCTCAAA
* *
1913173 GAGTAAAATTA-TCGAAATACCCTCGAA
1 GGGTAAAATTACT-GAAATACCCTCAAA
* *
1913200 GGGTAAAATTACCGAAATACCCTCGAA
1 GGGTAAAATTACTGAAATACCCTCAAA
1913227 GGGTAAAATTACTGAAATACCC-CTAAA
1 GGGTAAAATTACTGAAATACCCTC-AAA
*
1913254 GGGTAAAATTA-TCGAAATACCCTCGAA
1 GGGTAAAATTACT-GAAATACCCTCAAA
* *
1913281 GGGTAAAAGTACTAAAATACCCTCAAA
1 GGGTAAAATTACTGAAATACCCTCAAA
* *
1913308 AGGTAAAATTACTAAAATACCC-CTAAA
1 GGGTAAAATTACTGAAATACCCTC-AAA
*
1913335 GGGTAAAATTACCGAAATACCC-CTAAA
1 GGGTAAAATTACTGAAATACCCTC-AAA
*
1913362 GGGTAAAATTACTAAAATACCCTCGAAA
1 GGGTAAAATTACTGAAATACCCTC-AAA
* *
1913390 -GGTAAAATTACTGAAATACCTTCGAA
1 GGGTAAAATTACTGAAATACCCTCAAA
*
1913416 GGGTAAAATTACCGAAATACCCTCAAA
1 GGGTAAAATTACTGAAATACCCTCAAA
* * **
1913443 AGCTAAAATTACCAAAATACCCTCAAA
1 GGGTAAAATTACTGAAATACCCTCAAA
*
1913470 GGGTAAAATGACTG
1 GGGTAAAATTACTG
1913484 TTATACCCCT
Statistics
Matches: 317, Mismatches: 37, Indels: 22
0.84 0.10 0.06
Matches are distributed among these distances:
26 7 0.02
27 304 0.96
28 6 0.02
ACGTcount: A:0.44, C:0.19, G:0.16, T:0.21
Consensus pattern (27 bp):
GGGTAAAATTACTGAAATACCCTCAAA
Found at i:1913658 original size:26 final size:26
Alignment explanation
Indices: 1913603--1913704 Score: 80
Period size: 26 Copynumber: 3.9 Consensus size: 26
1913593 AGGCGAAGTA
** **
1913603 TACTG-TACTGGTGGCTTTGCCACAT
1 TACTGTTACTGGCAGCTTTGCTGCAT
1913628 ATACTGTTACTGGCAGCTTTGCTGCAT
1 -TACTGTTACTGGCAGCTTTGCTGCAT
* * * * * *
1913655 TACTGATATTGGTAGTTTTGTTGCGT
1 TACTGTTACTGGCAGCTTTGCTGCAT
* *
1913681 TATTATTACTGGCAGCTTTGCTGC
1 TACTGTTACTGGCAGCTTTGCTGC
1913705 GATATTGGTG
Statistics
Matches: 58, Mismatches: 17, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
26 42 0.72
27 16 0.28
ACGTcount: A:0.17, C:0.19, G:0.24, T:0.41
Consensus pattern (26 bp):
TACTGTTACTGGCAGCTTTGCTGCAT
Found at i:1916382 original size:23 final size:23
Alignment explanation
Indices: 1916354--1916403 Score: 91
Period size: 23 Copynumber: 2.2 Consensus size: 23
1916344 GATGGTTGTA
1916354 TTTGATGGTTATATTTTGTCTAT
1 TTTGATGGTTATATTTTGTCTAT
*
1916377 TTTGATGGTTCTATTTTGTCTAT
1 TTTGATGGTTATATTTTGTCTAT
1916400 TTTG
1 TTTG
1916404 GTATATGCAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.14, C:0.06, G:0.18, T:0.62
Consensus pattern (23 bp):
TTTGATGGTTATATTTTGTCTAT
Found at i:1917669 original size:16 final size:16
Alignment explanation
Indices: 1917650--1917680 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
1917640 TGATCCACAT
1917650 ATCAATTCTTGAGTCG
1 ATCAATTCTTGAGTCG
1917666 ATCAATTCTTGAGTC
1 ATCAATTCTTGAGTC
1917681 AACCAATTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.26, C:0.19, G:0.16, T:0.39
Consensus pattern (16 bp):
ATCAATTCTTGAGTCG
Found at i:1917687 original size:16 final size:16
Alignment explanation
Indices: 1917652--1917689 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
1917642 ATCCACATAT
* *
1917652 CAATTCTTGAGTCGAT
1 CAATTCTTGAGTCAAC
1917668 CAATTCTTGAGTCAAC
1 CAATTCTTGAGTCAAC
1917684 CAATTC
1 CAATTC
1917690 AAAATGCTTC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.29, C:0.24, G:0.13, T:0.34
Consensus pattern (16 bp):
CAATTCTTGAGTCAAC
Found at i:1925853 original size:52 final size:50
Alignment explanation
Indices: 1925791--1925893 Score: 170
Period size: 52 Copynumber: 2.0 Consensus size: 50
1925781 TCTAAGTACC
*
1925791 AAGCAGATAAAACTAATAACATAGAAATATAGTTTAAGAATAAACAAAAGCT
1 AAGCAGATAAAACTAATAACATAAAAATATAGTTTAA-AA-AAACAAAAGCT
*
1925843 AAGCAGATAAAACTTATAACATAAAAATATAGTTTAAAAAAACAAAAGCT
1 AAGCAGATAAAACTAATAACATAAAAATATAGTTTAAAAAAACAAAAGCT
1925893 A
1 A
1925894 CTACCCAATT
Statistics
Matches: 49, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
50 12 0.24
51 2 0.04
52 35 0.71
ACGTcount: A:0.59, C:0.10, G:0.10, T:0.21
Consensus pattern (50 bp):
AAGCAGATAAAACTAATAACATAAAAATATAGTTTAAAAAAACAAAAGCT
Found at i:1927869 original size:18 final size:17
Alignment explanation
Indices: 1927833--1927888 Score: 60
Period size: 18 Copynumber: 3.1 Consensus size: 17
1927823 TCTAAATGAA
1927833 TTCATTTCTCATTTTCATT
1 TTCATTTC-CA-TTTCATT
1927852 TTCATTTCCATTTCCA-T
1 TTCATTTCCATTT-CATT
*
1927869 TTCTGTTTCCATTTCATT
1 TTC-ATTTCCATTTCATT
1927887 TT
1 TT
1927889 GAGAAAACCA
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
17 9 0.27
18 16 0.48
19 8 0.24
ACGTcount: A:0.14, C:0.23, G:0.02, T:0.61
Consensus pattern (17 bp):
TTCATTTCCATTTCATT
Found at i:1927871 original size:6 final size:6
Alignment explanation
Indices: 1927835--1927887 Score: 54
Period size: 6 Copynumber: 8.8 Consensus size: 6
1927825 TAAATGAATT
* * **
1927835 CATTTC TCATTTT CATTTT CATTTC CATTTC CATTTC TGTTTC CATTT-
1 CATTTC -CATTTC CATTTC CATTTC CATTTC CATTTC CATTTC CATTTC
1927883 CATTT
1 CATTT
1927888 TGAGAAAACC
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
5 5 0.12
6 30 0.75
7 5 0.12
ACGTcount: A:0.15, C:0.25, G:0.02, T:0.58
Consensus pattern (6 bp):
CATTTC
Found at i:1927962 original size:53 final size:51
Alignment explanation
Indices: 1927880--1927985 Score: 133
Period size: 53 Copynumber: 2.0 Consensus size: 51
1927870 TCTGTTTCCA
** *
1927880 TTTCATTTTGAGAAAACCATATTCATTCCTAAATG-ATTCCATTTTCTCTAT
1 TTTCATTTTGAGAAAACCATAACCATTCCTAAATGTATTACA-TTTCTCTAT
* *
1927931 TTTCATTTTGGAGAAAACCATAACCATTTCCTGAATGTTTTACATTTCTCTAT
1 TTTCATTTT-GAGAAAACCATAACCA-TTCCTAAATGTATTACATTTCTCTAT
1927984 TT
1 TT
1927986 CTATTCATTT
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
51 9 0.19
52 14 0.30
53 20 0.43
54 4 0.09
ACGTcount: A:0.28, C:0.19, G:0.08, T:0.45
Consensus pattern (51 bp):
TTTCATTTTGAGAAAACCATAACCATTCCTAAATGTATTACATTTCTCTAT
Found at i:1951597 original size:20 final size:20
Alignment explanation
Indices: 1951572--1951619 Score: 87
Period size: 20 Copynumber: 2.4 Consensus size: 20
1951562 AATTGAAGTG
1951572 AATGTGATATTGAGTTATGA
1 AATGTGATATTGAGTTATGA
*
1951592 AATGTGATATTGGGTTATGA
1 AATGTGATATTGAGTTATGA
1951612 AATGTGAT
1 AATGTGAT
1951620 TTTATGGACT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.27, T:0.40
Consensus pattern (20 bp):
AATGTGATATTGAGTTATGA
Found at i:1951798 original size:76 final size:76
Alignment explanation
Indices: 1951655--1951896 Score: 342
Period size: 76 Copynumber: 3.2 Consensus size: 76
1951645 GATATTGTCA
* * * *
1951655 GTTCATCCAACTAGCGCTGGGTGCAACTTCTGTCAGTTTATCTGACTAGTGTTGGGCACACTGTC
1 GTTCATCCGACAAGCGCTGGGCGCAACTTCTGTCAGTTTATCTGACTAGTGTTGGGCACACTTTC
1951720 TATATCTATTG
66 TATATCTATTG
*
1951731 GTTTATCCGACAAGCGCTGGGCGCAACTTCTGTCAGTTTATCTGACTAGTGTTGGGCACACTTTC
1 GTTCATCCGACAAGCGCTGGGCGCAACTTCTGTCAGTTTATCTGACTAGTGTTGGGCACACTTTC
*
1951796 TATATCTATCG
66 TATATCTATTG
* * * * *
1951807 GTTCATCTGGCTAGCGTTGGGCGCAACTTCTGTCAGTTTATCTGACTAGTGCTGGGCACACTCTT
1 GTTCATCCGACAAGCGCTGGGCGCAACTTCTGTCAGTTTATCTGACTAGTGTTGGGCACACT-TT
* *
1951872 -TATATATGTTG
65 CTATATCTATTG
*
1951883 GTTCATCCAACAAG
1 GTTCATCCGACAAG
1951897 TATTGGGCGC
Statistics
Matches: 146, Mismatches: 19, Indels: 2
0.87 0.11 0.01
Matches are distributed among these distances:
76 144 0.99
77 2 0.01
ACGTcount: A:0.20, C:0.23, G:0.23, T:0.35
Consensus pattern (76 bp):
GTTCATCCGACAAGCGCTGGGCGCAACTTCTGTCAGTTTATCTGACTAGTGTTGGGCACACTTTC
TATATCTATTG
Found at i:1951863 original size:35 final size:35
Alignment explanation
Indices: 1951650--1951863 Score: 126
Period size: 35 Copynumber: 5.8 Consensus size: 35
1951640 TAATTGATAT
* ** *
1951650 TGTCAGTTCATCCAACTAGCGCTGGGTGCAACTTC
1 TGTCAGTTTATCTGACTAGCGCTGGGCGCAACTTC
* * *
1951685 TGTCAGTTTATCTGACTAGTGTTGGGCAC-ACTGTC
1 TGTCAGTTTATCTGACTAGCGCTGGGCGCAACT-TC
* * *
1951720 TATATCTATTGGTTTATCCGACAAGCGCTGGGCGCAACTTC
1 --TGTC-A---GTTTATCTGACTAGCGCTGGGCGCAACTTC
* * *
1951761 TGTCAGTTTATCTGACTAGTGTTGGGCAC-ACTTTC
1 TGTCAGTTTATCTGACTAGCGCTGGGCGCAAC-TTC
* * * *
1951796 TATATCTATCGGTTCATCTGGCTAGCGTTGGGCGCAACTTC
1 --TGTC-A---GTTTATCTGACTAGCGCTGGGCGCAACTTC
*
1951837 TGTCAGTTTATCTGACTAGTGCTGGGC
1 TGTCAGTTTATCTGACTAGCGCTGGGC
1951864 ACACTCTTTA
Statistics
Matches: 134, Mismatches: 29, Indels: 32
0.69 0.15 0.16
Matches are distributed among these distances:
34 5 0.04
35 64 0.48
37 6 0.04
38 4 0.03
39 6 0.04
41 44 0.33
42 5 0.04
ACGTcount: A:0.18, C:0.23, G:0.24, T:0.35
Consensus pattern (35 bp):
TGTCAGTTTATCTGACTAGCGCTGGGCGCAACTTC
Found at i:1953391 original size:15 final size:14
Alignment explanation
Indices: 1953367--1953402 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
1953357 GTTTTATAAT
1953367 AATAAAATAAAATGA
1 AATAAAATAAAA-GA
*
1953382 AATAACATAAAAGA
1 AATAAAATAAAAGA
1953396 AATAAAA
1 AATAAAA
1953403 GTTCAAGAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
14 8 0.42
15 11 0.58
ACGTcount: A:0.75, C:0.03, G:0.06, T:0.17
Consensus pattern (14 bp):
AATAAAATAAAAGA
Found at i:1963177 original size:14 final size:16
Alignment explanation
Indices: 1963140--1963179 Score: 59
Period size: 15 Copynumber: 2.7 Consensus size: 16
1963130 TTAACAATGT
1963140 TAAAGAA-AGAAAATA
1 TAAAGAAGAGAAAATA
1963155 TAAAGAAGAGAAAA-A
1 TAAAGAAGAGAAAATA
1963170 TAAA-AAGAGA
1 TAAAGAAGAGA
1963180 TGCTCATGGA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
14 6 0.25
15 12 0.50
16 6 0.25
ACGTcount: A:0.72, C:0.00, G:0.17, T:0.10
Consensus pattern (16 bp):
TAAAGAAGAGAAAATA
Found at i:1963896 original size:16 final size:15
Alignment explanation
Indices: 1963867--1963910 Score: 52
Period size: 16 Copynumber: 2.9 Consensus size: 15
1963857 ATGATTAAAC
* *
1963867 TTAATCATTTTAATA
1 TTAATCAATATAATA
1963882 TTAAATCAATATAATA
1 TT-AATCAATATAATA
*
1963898 TTTATCAATATAA
1 TTAATCAATATAA
1963911 ATAATAAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
15 12 0.48
16 13 0.52
ACGTcount: A:0.48, C:0.07, G:0.00, T:0.45
Consensus pattern (15 bp):
TTAATCAATATAATA
Found at i:1966828 original size:17 final size:17
Alignment explanation
Indices: 1966802--1966845 Score: 72
Period size: 17 Copynumber: 2.6 Consensus size: 17
1966792 CACATTGGTC
1966802 TTCT-AGGCTTGTAACA
1 TTCTGAGGCTTGTAACA
*
1966818 TTCTGAGGCTTGTAACG
1 TTCTGAGGCTTGTAACA
1966835 TTCTGAGGCTT
1 TTCTGAGGCTT
1966846 AGGACGGTAG
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
16 4 0.15
17 22 0.85
ACGTcount: A:0.18, C:0.18, G:0.25, T:0.39
Consensus pattern (17 bp):
TTCTGAGGCTTGTAACA
Found at i:1967165 original size:26 final size:26
Alignment explanation
Indices: 1967136--1967185 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
1967126 CACAGTGCTT
1967136 TTGTTTCTA-TTCTGTACTTTTTCTTC
1 TTGTTTCTACTTCTG-ACTTTTTCTTC
* *
1967162 TTGTTTTTACTTTTGACTTTTTCT
1 TTGTTTCTACTTCTGACTTTTTCT
1967186 CGATTCTTCT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
26 17 0.81
27 4 0.19
ACGTcount: A:0.08, C:0.16, G:0.08, T:0.68
Consensus pattern (26 bp):
TTGTTTCTACTTCTGACTTTTTCTTC
Found at i:1968479 original size:16 final size:16
Alignment explanation
Indices: 1968420--1968479 Score: 52
Period size: 16 Copynumber: 3.5 Consensus size: 16
1968410 TAAAAAGGGA
1968420 AATAAAATAATAAAAATT
1 AATAAAATAAT--AAATT
1968438 -ATGAAAAATAA-AAATT
1 AAT--AAAATAATAAATT
1968454 AAGCTAAAATAATAAATT
1 AA--TAAAATAATAAATT
1968472 AATAAAAT
1 AATAAAAT
1968480 TAGCACACTA
Statistics
Matches: 36, Mismatches: 0, Indels: 14
0.72 0.00 0.28
Matches are distributed among these distances:
16 11 0.31
17 10 0.28
18 7 0.19
19 8 0.22
ACGTcount: A:0.68, C:0.02, G:0.03, T:0.27
Consensus pattern (16 bp):
AATAAAATAATAAATT
Found at i:1976646 original size:9 final size:9
Alignment explanation
Indices: 1976624--1976653 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
1976614 GACTTTTATT
1976624 TTTAAAAGTA
1 TTTAAAA-TA
1976634 TTTAAAATA
1 TTTAAAATA
1976643 TTTAAAATA
1 TTTAAAATA
1976652 TT
1 TT
1976654 AATATAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 13 0.65
10 7 0.35
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (9 bp):
TTTAAAATA
Found at i:1978933 original size:25 final size:26
Alignment explanation
Indices: 1978899--1978970 Score: 74
Period size: 25 Copynumber: 2.7 Consensus size: 26
1978889 TCTTTAGAAT
*
1978899 TTTTATAATTTTTTAAA-AATGTAAA
1 TTTTAAAATTTTTTAAATAATGTAAA
* * *
1978924 TTTTAAAATTTTTATAAATATTTTGAA
1 TTTTAAAATTTTT-TAAATAATGTAAA
1978951 TTTTAAAAATTATTTTAAAT
1 TTTT-AAAATT-TTTTAAAT
1978971 TTTGTGAAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
25 12 0.31
26 4 0.10
27 9 0.23
28 11 0.28
29 3 0.08
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (26 bp):
TTTTAAAATTTTTTAAATAATGTAAA
Found at i:1978954 original size:19 final size:20
Alignment explanation
Indices: 1978908--1978987 Score: 74
Period size: 21 Copynumber: 3.9 Consensus size: 20
1978898 TTTTTATAAT
1978908 TTTTTAAAAATGTAAATTTTAAAA
1 TTTTTAAAAAT-T--ATTTT-AAA
* *
1978932 TTTTTATAAA-TATTTTGAA
1 TTTTTAAAAATTATTTTAAA
1978951 -TTTTAAAAATTATTTTAAA
1 TTTTTAAAAATTATTTTAAA
*
1978970 TTTTGTGAAAATTATTTT
1 TTTT-TAAAAATTATTTT
1978988 TATTATTTTG
Statistics
Matches: 48, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
18 8 0.17
19 10 0.21
20 8 0.17
21 12 0.25
22 1 0.02
24 9 0.19
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (20 bp):
TTTTTAAAAATTATTTTAAA
Found at i:1978969 original size:28 final size:27
Alignment explanation
Indices: 1978922--1978978 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 27
1978912 TAAAAATGTA
1978922 AATTTTAAAATTTTTATAAATATTT-TG
1 AATTTTAAAATTTTTATAAAT-TTTGTG
1978949 AATTTTAAAAATTATTT-TAAATTTTGTG
1 AATTTT-AAAATT-TTTATAAATTTTGTG
1978977 AA
1 AA
1978979 AATTATTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
27 9 0.33
28 15 0.56
29 3 0.11
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (27 bp):
AATTTTAAAATTTTTATAAATTTTGTG
Found at i:1981069 original size:2 final size:2
Alignment explanation
Indices: 1981062--1981087 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
1981052 TTCATAAATC
1981062 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
1981088 ATACAATTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1985509 original size:26 final size:26
Alignment explanation
Indices: 1985473--1985560 Score: 115
Period size: 26 Copynumber: 3.4 Consensus size: 26
1985463 GTATGTTTTC
* * *
1985473 TCAAAACTTTACCAAGGGCAAAATCA
1 TCAAAATTTTACCAAGGGTAAAATCG
1985499 TCAAAATTTTACC-AGGAGTAAAATCG
1 TCAAAATTTTACCAAGG-GTAAAATCG
* *
1985525 TCAAAATTTTAACAGGGGTAAAATCG
1 TCAAAATTTTACCAAGGGTAAAATCG
1985551 TCAAAATTTT
1 TCAAAATTTT
1985561 GTTGGGGGTA
Statistics
Matches: 55, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
25 3 0.05
26 50 0.91
27 2 0.04
ACGTcount: A:0.43, C:0.16, G:0.14, T:0.27
Consensus pattern (26 bp):
TCAAAATTTTACCAAGGGTAAAATCG
Found at i:1990170 original size:20 final size:20
Alignment explanation
Indices: 1990145--1990184 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
1990135 ATGTGAACCC
* *
1990145 ATTCAATATTTGGTATCACT
1 ATTCAATATATGATATCACT
1990165 ATTCAATATATGATATCACT
1 ATTCAATATATGATATCACT
1990185 TGTGTATTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.35, C:0.15, G:0.07, T:0.42
Consensus pattern (20 bp):
ATTCAATATATGATATCACT
Found at i:2002300 original size:35 final size:35
Alignment explanation
Indices: 2002254--2002324 Score: 106
Period size: 35 Copynumber: 2.0 Consensus size: 35
2002244 CATCTCCGGA
*
2002254 GCTTGGTAAATATGAAAAGTGATCTTCAAAGATAT
1 GCTTGGCAAATATGAAAAGTGATCTTCAAAGATAT
* * *
2002289 GCTTGGCAAATATGGAAGGTGATCTTTAAAGATAT
1 GCTTGGCAAATATGAAAAGTGATCTTCAAAGATAT
2002324 G
1 G
2002325 TGACCCTAGA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.37, C:0.08, G:0.24, T:0.31
Consensus pattern (35 bp):
GCTTGGCAAATATGAAAAGTGATCTTCAAAGATAT
Found at i:2007440 original size:35 final size:35
Alignment explanation
Indices: 2007401--2007471 Score: 115
Period size: 35 Copynumber: 2.0 Consensus size: 35
2007391 CATCTTCGGA
*
2007401 GCTTGGTAAATATGGAAAGTGATCTTCAAAGATAT
1 GCTTGGCAAATATGGAAAGTGATCTTCAAAGATAT
* *
2007436 GCTTGGCAAATATGGAAGGTGATCTTTAAAGATAT
1 GCTTGGCAAATATGGAAAGTGATCTTCAAAGATAT
2007471 G
1 G
2007472 TGATCCTAGA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.35, C:0.08, G:0.25, T:0.31
Consensus pattern (35 bp):
GCTTGGCAAATATGGAAAGTGATCTTCAAAGATAT
Found at i:2013023 original size:24 final size:27
Alignment explanation
Indices: 2012989--2013037 Score: 68
Period size: 24 Copynumber: 1.9 Consensus size: 27
2012979 AAAGGTTTAT
2012989 ATTTGTAAATAGTTAC-T-TTAAATCC
1 ATTTGTAAATAGTTACATATTAAATCC
*
2013014 ATTT-TAAATATTTACATATTAAAT
1 ATTTGTAAATAGTTACATATTAAAT
2013038 TTTTTAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 10 0.48
25 5 0.24
26 6 0.29
ACGTcount: A:0.41, C:0.08, G:0.04, T:0.47
Consensus pattern (27 bp):
ATTTGTAAATAGTTACATATTAAATCC
Found at i:2016249 original size:7 final size:7
Alignment explanation
Indices: 2016224--2016259 Score: 51
Period size: 7 Copynumber: 5.6 Consensus size: 7
2016214 AAAATATACT
2016224 AGTTTT-
1 AGTTTTA
2016230 AGTTTT-
1 AGTTTTA
2016236 A-TTTTA
1 AGTTTTA
2016242 AGTTTTA
1 AGTTTTA
2016249 AGTTTTA
1 AGTTTTA
2016256 AGTT
1 AGTT
2016260 ACAAAATGTT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
5 4 0.14
6 8 0.29
7 16 0.57
ACGTcount: A:0.25, C:0.00, G:0.14, T:0.61
Consensus pattern (7 bp):
AGTTTTA
Found at i:2016354 original size:53 final size:53
Alignment explanation
Indices: 2016278--2016458 Score: 194
Period size: 53 Copynumber: 3.7 Consensus size: 53
2016268 TTAGATTTTG
2016278 TTAC-AACAATTAATACAATTAACAATTAATAATTTGATATAATTTGATAATT
1 TTACTAACAATTAATACAATTAACAATTAATAATTTGATATAATTTGATAATT
* * *
2016330 TTACTAACAATTAATACAATTAACAATTAATAATTT--TACTAA---CAAAATA
1 TTACTAACAATTAATACAATTAACAATTAATAATTTGATA-TAATTTGATAATT
*
2016379 TTAGTAACAA-T--T--AA-T---AATTAATAATTTGATATAATTTGATAATT
1 TTACTAACAATTAATACAATTAACAATTAATAATTTGATATAATTTGATAATT
* *
2016423 TTAGTAACAATTAATACAATTAATAATTAATAATTT
1 TTACTAACAATTAATACAATTAACAATTAATAATTT
2016459 TACTAACAAA
Statistics
Matches: 106, Mismatches: 7, Indels: 31
0.74 0.05 0.22
Matches are distributed among these distances:
40 12 0.11
41 3 0.03
42 2 0.02
43 1 0.01
44 16 0.15
45 1 0.01
46 1 0.01
47 1 0.01
48 1 0.01
49 15 0.14
50 1 0.01
51 2 0.02
52 7 0.07
53 43 0.41
ACGTcount: A:0.49, C:0.07, G:0.03, T:0.40
Consensus pattern (53 bp):
TTACTAACAATTAATACAATTAACAATTAATAATTTGATATAATTTGATAATT
Found at i:2016392 original size:33 final size:34
Alignment explanation
Indices: 2016324--2016397 Score: 105
Period size: 33 Copynumber: 2.2 Consensus size: 34
2016314 ATATAATTTG
*
2016324 ATAATTTTACTAACAATTAATACAATTAACAATTA
1 ATAATTTTACTAACAA-TAATACAAGTAACAATTA
**
2016359 ATAATTTTACTAACAA-AATATTAGTAACAATTA
1 ATAATTTTACTAACAATAATACAAGTAACAATTA
2016392 ATAATT
1 ATAATT
2016398 AATAATTTGA
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
33 20 0.56
35 16 0.44
ACGTcount: A:0.51, C:0.09, G:0.01, T:0.38
Consensus pattern (34 bp):
ATAATTTTACTAACAATAATACAAGTAACAATTA
Found at i:2016400 original size:93 final size:93
Alignment explanation
Indices: 2016292--2016475 Score: 332
Period size: 93 Copynumber: 2.0 Consensus size: 93
2016282 AACAATTAAT
2016292 ACAATTAACAATTAATAATTTGATATAATTTGATAATTTTACTAACAATTAATACAATTAACAAT
1 ACAATTAACAATTAATAATTTGATATAATTTGATAATTTTACTAACAATTAATACAATTAACAAT
2016357 TAATAATTTTACTAACAAAATATTAGTA
66 TAATAATTTTACTAACAAAATATTAGTA
* * *
2016385 ACAATTAATAATTAATAATTTGATATAATTTGATAATTTTAGTAACAATTAATACAATTAATAAT
1 ACAATTAACAATTAATAATTTGATATAATTTGATAATTTTACTAACAATTAATACAATTAACAAT
*
2016450 TAATAATTTTACTAACAAAATGTTAG
66 TAATAATTTTACTAACAAAATATTAG
2016476 ATTTTACAAA
Statistics
Matches: 87, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 87 1.00
ACGTcount: A:0.49, C:0.07, G:0.04, T:0.40
Consensus pattern (93 bp):
ACAATTAACAATTAATAATTTGATATAATTTGATAATTTTACTAACAATTAATACAATTAACAAT
TAATAATTTTACTAACAAAATATTAGTA
Found at i:2016538 original size:16 final size:16
Alignment explanation
Indices: 2016519--2016575 Score: 96
Period size: 16 Copynumber: 3.6 Consensus size: 16
2016509 AATTTGATAC
2016519 AATTTTAATAACAATT
1 AATTTTAATAACAATT
*
2016535 AATTTTGATAACAATT
1 AATTTTAATAACAATT
2016551 AATTTTAATAACAATT
1 AATTTTAATAACAATT
*
2016567 AGTTTTAAT
1 AATTTTAAT
2016576 TTTAATAAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 38 1.00
ACGTcount: A:0.46, C:0.05, G:0.04, T:0.46
Consensus pattern (16 bp):
AATTTTAATAACAATT
Found at i:2016558 original size:22 final size:23
Alignment explanation
Indices: 2016549--2016611 Score: 92
Period size: 22 Copynumber: 2.7 Consensus size: 23
2016539 TTGATAACAA
* *
2016549 TTAATTTTAATAACAAT-TAGTT
1 TTAATTTTAATAAAAATATAATT
2016571 TTAATTTTAATAAAAATATAATT
1 TTAATTTTAATAAAAATATAATT
2016594 TTAATTTTAATTAAAAAT
1 TTAATTTTAA-TAAAAAT
2016612 GGGCCGGGCC
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
22 16 0.43
23 14 0.38
24 7 0.19
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.49
Consensus pattern (23 bp):
TTAATTTTAATAAAAATATAATT
Found at i:2018500 original size:2 final size:2
Alignment explanation
Indices: 2018493--2018530 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
2018483 CCTTAACCTA
2018493 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2018531 NNNNNNNNNN
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2019875 original size:43 final size:44
Alignment explanation
Indices: 2019791--2019912 Score: 144
Period size: 43 Copynumber: 2.8 Consensus size: 44
2019781 CTTGTACAAT
* * * *
2019791 GCCAACGTCCCAGAC-GTGGTCTTACATGTAATCACAGATCGAC
1 GCCAACGTCCCAGACAGTGGTCTTACACGAAAACACAAATCGAC
* *
2019834 GCC-ACTGTCCCAGACAG-GGTCTTACACGAAAACATAAATCGAT
1 GCCAAC-GTCCCAGACAGTGGTCTTACACGAAAACACAAATCGAC
*
2019877 GCCAACGTCCCAGA-AGTGGTATTACACGAAAACACA
1 GCCAACGTCCCAGACAGTGGTCTTACACGAAAACACA
2019913 TATCAAAAAT
Statistics
Matches: 67, Mismatches: 8, Indels: 8
0.81 0.10 0.10
Matches are distributed among these distances:
42 4 0.06
43 60 0.90
44 3 0.04
ACGTcount: A:0.34, C:0.29, G:0.20, T:0.18
Consensus pattern (44 bp):
GCCAACGTCCCAGACAGTGGTCTTACACGAAAACACAAATCGAC
Found at i:2024265 original size:34 final size:34
Alignment explanation
Indices: 2024214--2024660 Score: 488
Period size: 34 Copynumber: 13.3 Consensus size: 34
2024204 AGGAAGAAAC
* *
2024214 ATGCGAA-CCCCATGTTATATAGTATGACTTAAT
1 ATGCGAACCCCCATGTTATATAGTATGACATAGT
* * *
2024247 ATGCGAACTCTCATGTTATATAGTATGACATGGT
1 ATGCGAACCCCCATGTTATATAGTATGACATAGT
* *
2024281 ATGCAAACCCCAATGTTATATAGTATGAC--AGT
1 ATGCGAACCCCCATGTTATATAGTATGACATAGT
* * *
2024313 ATACAAACCCTCATGTTATATAGTATGACATAGT
1 ATGCGAACCCCCATGTTATATAGTATGACATAGT
* * ** * *
2024347 ATACAAACCCCCACATCATATAGTATGACATAGC
1 ATGCGAACCCCCATGTTATATAGTATGACATAGT
* * ** * *
2024381 ATGC-AAACCCTATGTTATATAAAATGGCATACT
1 ATGCGAACCCCCATGTTATATAGTATGACATAGT
*
2024414 ATGCAAACCCCCATGTTATATAGTATGACATAGT
1 ATGCGAACCCCCATGTTATATAGTATGACATAGT
* **
2024448 ATGCGAACCCTCACATTATATAGTATGACATAGT
1 ATGCGAACCCCCATGTTATATAGTATGACATAGT
** ** *
2024482 ATGCGAACCCTTACATTATATAGCATGACATAGT
1 ATGCGAACCCCCATGTTATATAGTATGACATAGT
* *
2024516 ATGTGAACCCCCATGTTATATAGAATGACATAGT
1 ATGCGAACCCCCATGTTATATAGTATGACATAGT
* ** *
2024550 ATACGAACCTTCATGTTATATAGTATGACAAAGT
1 ATGCGAACCCCCATGTTATATAGTATGACATAGT
* *
2024584 ATGTGAACCCCTATGTTATATAGTATGACATAGT
1 ATGCGAACCCCCATGTTATATAGTATGACATAGT
* * *
2024618 ATGCGAACACCCACGTTATTTAGTATGACATAGT
1 ATGCGAACCCCCATGTTATATAGTATGACATAGT
2024652 ATGCGAACC
1 ATGCGAACC
2024661 TGATTTGCCA
Statistics
Matches: 345, Mismatches: 65, Indels: 7
0.83 0.16 0.02
Matches are distributed among these distances:
32 28 0.08
33 30 0.09
34 287 0.83
ACGTcount: A:0.36, C:0.19, G:0.15, T:0.30
Consensus pattern (34 bp):
ATGCGAACCCCCATGTTATATAGTATGACATAGT
Found at i:2026247 original size:15 final size:15
Alignment explanation
Indices: 2026236--2026293 Score: 80
Period size: 15 Copynumber: 3.9 Consensus size: 15
2026226 AATATGTGTG
*
2026236 AACCTTATATGTGCA
1 AACCCTATATGTGCA
2026251 AACCCTATATGTGCA
1 AACCCTATATGTGCA
* * *
2026266 AACCTTGTATGTGCG
1 AACCCTATATGTGCA
2026281 AACCCTATATGTG
1 AACCCTATATGTG
2026294 AGCTTGTTAT
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 37 1.00
ACGTcount: A:0.29, C:0.22, G:0.17, T:0.31
Consensus pattern (15 bp):
AACCCTATATGTGCA
Found at i:2026262 original size:30 final size:30
Alignment explanation
Indices: 2026227--2026293 Score: 98
Period size: 30 Copynumber: 2.2 Consensus size: 30
2026217 ATGTGATTTA
**
2026227 ATATGTGTGAACCTTATATGTGCAAACCCT
1 ATATGTGCAAACCTTATATGTGCAAACCCT
* *
2026257 ATATGTGCAAACCTTGTATGTGCGAACCCT
1 ATATGTGCAAACCTTATATGTGCAAACCCT
2026287 ATATGTG
1 ATATGTG
2026294 AGCTTGTTAT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.33
Consensus pattern (30 bp):
ATATGTGCAAACCTTATATGTGCAAACCCT
Found at i:2032051 original size:5 final size:5
Alignment explanation
Indices: 2032041--2032114 Score: 148
Period size: 5 Copynumber: 14.8 Consensus size: 5
2032031 TTTATACTCG
2032041 CTATA CTATA CTATA CTATA CTATA CTATA CTATA CTATA CTATA CTATA
1 CTATA CTATA CTATA CTATA CTATA CTATA CTATA CTATA CTATA CTATA
2032091 CTATA CTATA CTATA CTATA CTAT
1 CTATA CTATA CTATA CTATA CTAT
2032115 TCCTTAGTTT
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 69 1.00
ACGTcount: A:0.39, C:0.20, G:0.00, T:0.41
Consensus pattern (5 bp):
CTATA
Found at i:2034357 original size:19 final size:19
Alignment explanation
Indices: 2034333--2034369 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
2034323 TCCTCAGTTC
2034333 TTTTCTTTTATTTT-TTATG
1 TTTTC-TTTATTTTATTATG
2034352 TTTTCTTTATTTTATTAT
1 TTTTCTTTATTTTATTAT
2034370 TATTTCTTAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.14, C:0.05, G:0.03, T:0.78
Consensus pattern (19 bp):
TTTTCTTTATTTTATTATG
Found at i:2041111 original size:22 final size:22
Alignment explanation
Indices: 2041086--2041128 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
2041076 TTTCACGGCG
*
2041086 GTGGATGGCAGCGACCACGGTA
1 GTGGATAGCAGCGACCACGGTA
**
2041108 GTGGATAGTGGCGACCACGGT
1 GTGGATAGCAGCGACCACGGT
2041129 GGAGGATGAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.21, C:0.21, G:0.42, T:0.16
Consensus pattern (22 bp):
GTGGATAGCAGCGACCACGGTA
Found at i:2043845 original size:19 final size:19
Alignment explanation
Indices: 2043821--2043879 Score: 68
Period size: 19 Copynumber: 3.1 Consensus size: 19
2043811 ATTCCGAAAA
*
2043821 TAATATTATTTTAATAGTT
1 TAATATTAATTTAATAGTT
2043840 TAATATTTAATTTAATAGTAT
1 TAATA-TTAATTTAATAGT-T
*
2043861 T-TTATTAATTTAATA-TT
1 TAATATTAATTTAATAGTT
2043878 TA
1 TA
2043880 TCTTGTAGAT
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
17 2 0.06
18 1 0.03
19 16 0.46
20 14 0.40
21 2 0.06
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (19 bp):
TAATATTAATTTAATAGTT
Found at i:2043862 original size:31 final size:31
Alignment explanation
Indices: 2043821--2043879 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
2043811 ATTCCGAAAA
* *
2043821 TAATATTATTTTAATAGTTTAATATTTAATT
1 TAATAGTATTTTAATAATTTAATATTTAATT
*
2043852 TAATAGTATTTTATTAATTTAATATTTA
1 TAATAGTATTTTAATAATTTAATATTTA
2043880 TCTTGTAGAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (31 bp):
TAATAGTATTTTAATAATTTAATATTTAATT
Found at i:2044934 original size:21 final size:21
Alignment explanation
Indices: 2044910--2044955 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
2044900 CACACGGCCG
2044910 TGTGGCTATCCC-ACACGCTCA
1 TGTGGCTA-CCCTACACGCTCA
* *
2044931 TGTGTCTACCCTACACGCTCG
1 TGTGGCTACCCTACACGCTCA
2044952 TGTG
1 TGTG
2044956 CTTAATCGTG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 3 0.14
21 19 0.86
ACGTcount: A:0.15, C:0.35, G:0.22, T:0.28
Consensus pattern (21 bp):
TGTGGCTACCCTACACGCTCA
Found at i:2045973 original size:25 final size:24
Alignment explanation
Indices: 2045945--2046004 Score: 75
Period size: 24 Copynumber: 2.5 Consensus size: 24
2045935 TAATCATTGG
*
2045945 CTCAAGGCCTGATAGACAACACCGA
1 CTCAAGGCCTGATAAAC-ACACCGA
*
2045970 CTCAAGGCCAGATAAACACACCGA
1 CTCAAGGCCTGATAAACACACCGA
* *
2045994 CACAAAGCCTG
1 CTCAAGGCCTG
2046005 CTAGGCACAA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
24 15 0.50
25 15 0.50
ACGTcount: A:0.38, C:0.33, G:0.18, T:0.10
Consensus pattern (24 bp):
CTCAAGGCCTGATAAACACACCGA
Found at i:2056719 original size:14 final size:14
Alignment explanation
Indices: 2056700--2056737 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
2056690 GTTTGCTAGT
*
2056700 AAAATGTTTTCCGG
1 AAAATGATTTCCGG
*
2056714 AAAATGATTTCTGG
1 AAAATGATTTCCGG
2056728 AAAATGATTT
1 AAAATGATTT
2056738 ACTTTTTTGG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.37, C:0.08, G:0.18, T:0.37
Consensus pattern (14 bp):
AAAATGATTTCCGG
Found at i:2056855 original size:20 final size:20
Alignment explanation
Indices: 2056830--2056867 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
2056820 GTTTTTACAT
2056830 ATATTAATAAATTTATATAC
1 ATATTAATAAATTTATATAC
2056850 ATATTAATAAATTTATAT
1 ATATTAATAAATTTATAT
2056868 TTTAAATTGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (20 bp):
ATATTAATAAATTTATATAC
Found at i:2058158 original size:32 final size:32
Alignment explanation
Indices: 2058112--2058206 Score: 163
Period size: 32 Copynumber: 2.9 Consensus size: 32
2058102 ATTGTCAATC
2058112 ATTTCAATATCCAACAAGCTTAAAACATAATAA
1 ATTT-AATATCCAACAAGCTTAAAACATAATAA
2058145 ATTTAATATCCAACAAGCTTAAAACATAATAA
1 ATTTAATATCCAACAAGCTTAAAACATAATAA
* *
2058177 ATTCAATATCTAACAAGCTTAAAACATAAT
1 ATTTAATATCCAACAAGCTTAAAACATAAT
2058207 CAATATCTAA
Statistics
Matches: 60, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
32 56 0.93
33 4 0.07
ACGTcount: A:0.52, C:0.17, G:0.03, T:0.28
Consensus pattern (32 bp):
ATTTAATATCCAACAAGCTTAAAACATAATAA
Found at i:2058230 original size:27 final size:27
Alignment explanation
Indices: 2058179--2058233 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 27
2058169 CATAATAAAT
*
2058179 TCAATATCTAACAAGCTTAAAACATAA
1 TCAATATCTAACAAGATTAAAACATAA
*
2058206 TCAATATCTAACAA-ATTCAAGACATAA
1 TCAATATCTAACAAGATT-AAAACATAA
2058233 T
1 T
2058234 AATTTCAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 2 0.08
27 23 0.92
ACGTcount: A:0.51, C:0.18, G:0.04, T:0.27
Consensus pattern (27 bp):
TCAATATCTAACAAGATTAAAACATAA
Found at i:2061560 original size:4 final size:4
Alignment explanation
Indices: 2061553--2061739 Score: 374
Period size: 4 Copynumber: 46.8 Consensus size: 4
2061543 TCCAATAAAT
2061553 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
2061601 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
2061649 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
2061697 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
2061740 TATTTTGATA
Statistics
Matches: 183, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 183 1.00
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (4 bp):
ATAC
Found at i:2072839 original size:21 final size:21
Alignment explanation
Indices: 2072810--2072885 Score: 62
Period size: 21 Copynumber: 3.6 Consensus size: 21
2072800 CTTAAACTCG
*
2072810 TAAGGGTTGAACGGAAGCTCA
1 TAAGAGTTGAACGGAAGCTCA
* * *
2072831 TAAGAGTTGAACAGAAACCCA
1 TAAGAGTTGAACGGAAGCTCA
* * **
2072852 TAAGGGTTAAACTAAAGCTCA
1 TAAGAGTTGAACGGAAGCTCA
* *
2072873 AAAGAGCTGAACG
1 TAAGAGTTGAACG
2072886 AAAACCCATT
Statistics
Matches: 40, Mismatches: 15, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.42, C:0.16, G:0.25, T:0.17
Consensus pattern (21 bp):
TAAGAGTTGAACGGAAGCTCA
Found at i:2072856 original size:42 final size:42
Alignment explanation
Indices: 2072810--2072922 Score: 129
Period size: 42 Copynumber: 2.7 Consensus size: 42
2072800 CTTAAACTCG
*
2072810 TAAGGGTTGAACGGAAGCTCATAAGAGTTGAAC-AGAAACCCA
1 TAAGGGTTAAACGGAAGCTCATAAGAGTTGAACGA-AAACCCA
** * *
2072852 TAAGGGTTAAACTAAAGCTCAAAAGAGCTGAACGAAAACCCA
1 TAAGGGTTAAACGGAAGCTCATAAGAGTTGAACGAAAACCCA
* * * *
2072894 TTAGGGTTAAATGGAAACTCATATGAGTT
1 TAAGGGTTAAACGGAAGCTCATAAGAGTT
2072923 AATGGAAGCT
Statistics
Matches: 57, Mismatches: 13, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
42 56 0.98
43 1 0.02
ACGTcount: A:0.42, C:0.15, G:0.23, T:0.20
Consensus pattern (42 bp):
TAAGGGTTAAACGGAAGCTCATAAGAGTTGAACGAAAACCCA
Found at i:2075782 original size:74 final size:74
Alignment explanation
Indices: 2075659--2075802 Score: 225
Period size: 74 Copynumber: 1.9 Consensus size: 74
2075649 ATGGTTTCGA
** * * * *
2075659 AACCCCATTTTTGTAAATAGTATTCGTAAATATATTTATTAAATTTTTACGGAGTTACATTATTG
1 AACCCCATTTTCATAAATAATATTCATAAATATATTTATTAAATATTTACGAAGTTACATTATTG
2075724 GTGAACTGG
66 GTGAACTGG
*
2075733 AACCCCATTTTCATAAATAATGTTCATAAATATATTTATTAAATATTTACGAAGTTACATTATTG
1 AACCCCATTTTCATAAATAATATTCATAAATATATTTATTAAATATTTACGAAGTTACATTATTG
2075798 GTGAA
66 GTGAA
2075803 TTGAATTTTA
Statistics
Matches: 63, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
74 63 1.00
ACGTcount: A:0.36, C:0.11, G:0.12, T:0.41
Consensus pattern (74 bp):
AACCCCATTTTCATAAATAATATTCATAAATATATTTATTAAATATTTACGAAGTTACATTATTG
GTGAACTGG
Found at i:2079006 original size:39 final size:39
Alignment explanation
Indices: 2078957--2079133 Score: 273
Period size: 39 Copynumber: 4.5 Consensus size: 39
2078947 TGTTTTATAT
* *
2078957 GTATTGTGATATACGCTTAAATGTTATGTGATTATATAA
1 GTATTGTGATATATGCTTAAATGTTATGTGATTATATGA
*
2078996 GTATTATGATATATGCTTAAATGTTATGTGATTATATGA
1 GTATTGTGATATATGCTTAAATGTTATGTGATTATATGA
* *
2079035 TTATTGTGATATAAGCTTAAATGTTATGTGATTATATGA
1 GTATTGTGATATATGCTTAAATGTTATGTGATTATATGA
* * *
2079074 GTATTGTGATATATGCTTAAATTTTATGTAATTATATGT
1 GTATTGTGATATATGCTTAAATGTTATGTGATTATATGA
*
2079113 GTAATGTGATATATGCTTAAA
1 GTATTGTGATATATGCTTAAA
2079134 AGTGAATATG
Statistics
Matches: 126, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 126 1.00
ACGTcount: A:0.33, C:0.03, G:0.18, T:0.46
Consensus pattern (39 bp):
GTATTGTGATATATGCTTAAATGTTATGTGATTATATGA
Found at i:2079156 original size:23 final size:23
Alignment explanation
Indices: 2079130--2079185 Score: 73
Period size: 22 Copynumber: 2.5 Consensus size: 23
2079120 GATATATGCT
*
2079130 TAAAAGTGAA-TATGCTTCCTATG
1 TAAAAG-GAACTATGATTCCTATG
2079153 TAAAA-GAACTATGATTCCTATG
1 TAAAAGGAACTATGATTCCTATG
2079175 TAAAA-GAACTA
1 TAAAAGGAACTA
2079186 GAAAATAATG
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
21 3 0.10
22 23 0.74
23 5 0.16
ACGTcount: A:0.43, C:0.12, G:0.14, T:0.30
Consensus pattern (23 bp):
TAAAAGGAACTATGATTCCTATG
Found at i:2079170 original size:22 final size:22
Alignment explanation
Indices: 2079140--2079185 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
2079130 TAAAAGTGAA
*
2079140 TATGCTTCCTATGTAAAAGAAC
1 TATGATTCCTATGTAAAAGAAC
2079162 TATGATTCCTATGTAAAAGAAC
1 TATGATTCCTATGTAAAAGAAC
2079184 TA
1 TA
2079186 GAAAATAATG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.39, C:0.15, G:0.13, T:0.33
Consensus pattern (22 bp):
TATGATTCCTATGTAAAAGAAC
Found at i:2086880 original size:3 final size:3
Alignment explanation
Indices: 2086872--2086947 Score: 98
Period size: 3 Copynumber: 25.3 Consensus size: 3
2086862 GGTTTTCATC
*
2086872 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TCA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * *
2086920 TAA TCA TCA TTA TTA TCA TTA TCA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
2086948 CATTTATTTA
Statistics
Matches: 65, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 65 1.00
ACGTcount: A:0.34, C:0.07, G:0.00, T:0.59
Consensus pattern (3 bp):
TTA
Found at i:2087403 original size:45 final size:45
Alignment explanation
Indices: 2087354--2087446 Score: 177
Period size: 45 Copynumber: 2.1 Consensus size: 45
2087344 TCAAAATTGC
2087354 AATAATGGTAGTTGGAAATGACTAAATTGTTATATGAATTGGTTA
1 AATAATGGTAGTTGGAAATGACTAAATTGTTATATGAATTGGTTA
*
2087399 AATAATGGTAGTTGGAAATGACTAAGTTGTTATATGAATTGGTTA
1 AATAATGGTAGTTGGAAATGACTAAATTGTTATATGAATTGGTTA
2087444 AAT
1 AAT
2087447 TGAGTTGATA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 47 1.00
ACGTcount: A:0.38, C:0.02, G:0.23, T:0.38
Consensus pattern (45 bp):
AATAATGGTAGTTGGAAATGACTAAATTGTTATATGAATTGGTTA
Found at i:2088737 original size:18 final size:19
Alignment explanation
Indices: 2088714--2088749 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
2088704 TAATTTTTCA
*
2088714 ATAAAG-TGAGAAAATGAT
1 ATAAAGATGACAAAATGAT
2088732 ATAAAGATGACAAAATGA
1 ATAAAGATGACAAAATGA
2088750 AGGTTTAGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.58, C:0.03, G:0.19, T:0.19
Consensus pattern (19 bp):
ATAAAGATGACAAAATGAT
Found at i:2100940 original size:27 final size:27
Alignment explanation
Indices: 2100910--2100965 Score: 85
Period size: 27 Copynumber: 2.1 Consensus size: 27
2100900 AGATGAAATA
* * *
2100910 TAATATGGCAATTTGTTATGTGGTACG
1 TAATATGACAATCTGTCATGTGGTACG
2100937 TAATATGACAATCTGTCATGTGGTACG
1 TAATATGACAATCTGTCATGTGGTACG
2100964 TA
1 TA
2100966 GTGTAAGGTC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.29, C:0.11, G:0.23, T:0.38
Consensus pattern (27 bp):
TAATATGACAATCTGTCATGTGGTACG
Found at i:2105097 original size:42 final size:42
Alignment explanation
Indices: 2105025--2105104 Score: 106
Period size: 42 Copynumber: 1.9 Consensus size: 42
2105015 TCGAAGTCGG
* * *
2105025 GACACACAGCCGTGTCCCAGCCCGTGTAACTTACTGACCTGA
1 GACACACAGCCGTGTCCCAGCCCATATAACTCACTGACCTGA
* * *
2105067 GACACATAGCCGTGTCTCTGCCCATATAACTCACTGAC
1 GACACACAGCCGTGTCCCAGCCCATATAACTCACTGAC
2105105 TTGGGTCACA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 32 1.00
ACGTcount: A:0.25, C:0.35, G:0.19, T:0.21
Consensus pattern (42 bp):
GACACACAGCCGTGTCCCAGCCCATATAACTCACTGACCTGA
Found at i:2109110 original size:839 final size:836
Alignment explanation
Indices: 2107467--2109480 Score: 2546
Period size: 839 Copynumber: 2.4 Consensus size: 836
2107457 GGGTCGTTAC
** * * * * *
2107467 AGCATCTTTCCAATTGGACTTGATAAACGTCATATTATTCTTTCAATTGATTTGCTCATTTCCAA
1 AGCATCTCCCCAATTGGACTTGATAGACGACATATTAATCTTTCAATCGATTTGCTCATTTCTAA
* * * * * * *
2107532 TTAGACTAAGGACATGTTTAGGTTCGTCTATTAATATAAGTTATATTTTTGCATTACAATTTGAC
66 TTAGACTAAGGACATGTTTAGGTTCATCTAATAATATAAGTTGTCTTTTCGTATTACAATCTGAC
* * *
2107597 CACGTAATATTGCTTAGTATTAGTTTAAACATTAGACAACCAGTGAGCCAATCTTTGCTTCTATT
131 CACATAATATCGCTTAGTATTAGTTTAAACATTAGACAACCAGTGAG-CAATATTTGCTTCTATT
* * ** *
2107662 TT-TCTTTGCATGCAATAATCATTTGAGAACAATATACAAAGGGAATTAATGAAATTCATGAATA
195 TTGT-TTTGCATGCAAAAACCATTAAAG-ACAATATACAAAGGGAATTAATGTAATTCATGAATA
* * *
2107726 ATTTTATTACCCAGTCTGTTCGAAAAAATTACAAGTGTACATAA-ATGAAAACACTACACTTAGA
258 ATTTTATTAACCAATCTGTTCGAAAAAATTACAAGTGTACATAACA--AAAA-ACTACACTTAGG
* *
2107790 GCACCAGATACAACAATTAGGATAAATCCGTTCTCCCAATATGATCCTATTTTATCTCATGATAA
320 GCACCAAATCCAACAATTAGGATAAATCCGTTCTCCCAATATGATCCTATTTTATCTCATGATAA
* * *
2107855 TCATTACATCTACCTTCATGAAAAGTCAATTACTATCAAATAGTAATTAAGTTACCCATCACAAA
385 CCATTACATCTACCTTCATGAAAAGTCAATTACTACCAAATAGTAATTAAGTCACCCATCACAAA
* * *
2107920 GACAAACGATCTGTGGCCACGTTTACTTTTCATCTATCATGTAATGTCAACAGGAGGATATTATT
450 GACAAACGATCTGTGGCCACGTTTAATTTTCATCTATCATGTAATGCCAACAGGAGGATATCATT
* * * * **
2107985 TACCCATGTCTTGGGCTATGAATTCCACTATTGTTAATGACGCTACATACTACAGAAGTTGTATA
515 TACCCATGTCTTAGGCTATGAATTCAACTACTGTGAATGACGCTACATACTACAGAAGTCATATA
** * *
2108050 CCCAATTCACTAGCTTTCAGTTCCTTATCTATTTGAACTCATGTTTTTACTTACATCAAAGTATA
580 CCCAACGCACTAGCTTTCAGTTCCTTATCTATTTAAACTCAGGTTTTTACTTACATCAAAGTATA
* *
2108115 CAAGTCACACATACATAGTCCATCATCCATTCAAGATTAATGTATGTCGCATTATGAACGTCACA
645 CAAGTCACACATACATAGTCCATCATCCATTCAAGATTAATGTAGGTCGCACTATGAACGTCACA
* * * * *
2108180 AGTGAATAAATCTATAAACGAATTCAGGATCTATTCTACTTGGGTCTTGGTCGATGTACTATCAA
710 AGTAAATAAACCCATAAACAAATTCAAGATCTATTCTACTTGGGTCTTGGTCGATGTACTATCAA
* * ** **** * *
2108245 TCCAGTTAGTCACATCTATGTCTCTATCTTCTGGGAATCATTTGGTCCAATGCTTAAGAAAA
775 TCCAATCAGTCACATCTATGTCTCTATCTTCTAAGAATCATCCACTCCAATACTCAAGAAAA
* * * * *
2108307 AGCATCTCCTCAATTGGACTTGATAGACAACATATTAATCTTTCAATCAATTTGCTTATTTCTGA
1 AGCATCTCCCCAATTGGACTTGATAGACGACATATTAATCTTTCAATCGATTTGCTCATTTCTAA
* * * * *
2108372 TTAAACTAAGGACATGATTAGGTTTATTTAATAATATAAATTGTCTTTTCGTATTACAATCTGAC
66 TTAGACTAAGGACATGTTTAGGTTCATCTAATAATATAAGTTGTCTTTTCGTATTACAATCTGAC
2108437 CACATAATATCGCTTAGTATTAGTTTAAACATTAGA-AACCAGTGAGTCAATATTTGCTTCTATT
131 CACATAATATCGCTTAGTATTAGTTTAAACATTAGACAACCAGTGAG-CAATATTTGCTTCTATT
*
2108501 TTGTTTTGCATGCAAAAACCATATAAAGACAATATACAAAGGGCATTAATGTAATTCATGAATAA
195 TTGTTTTGCATGCAAAAACCAT-TAAAGACAATATACAAAGGGAATTAATGTAATTCATGAATAA
*
2108566 TTTTATTAACCAATCTATTCGAAAAAAATTACAAGTGTACATAGACAAAAATACTACACTTAGGG
259 TTTTATTAACCAATCTGTTCG-AAAAAATTACAAGTGTACATA-ACAAAAA-ACTACACTTAGGG
* * * * ** * *
2108631 TACCAAATCCAACACTTGGGATAGATTTGTTCTCTCAATATGATCCTATTTTATCTCATGGTAAC
321 CACCAAATCCAACAATTAGGATAAATCCGTTCTCCCAATATGATCCTATTTTATCTCATGATAAC
* * **
2108696 CATTACATCTTCTTTCATGAAAAGTCAATTACTACCAAATAGTAATTAAGTCATTCATCACAAAG
386 CATTACATCTACCTTCATGAAAAGTCAATTACTACCAAATAGTAATTAAGTCACCCATCACAAAG
* * * *
2108761 ACAAATGA-CTTGTTGTCACGTTTAATTTTCATCTATCATGTAATGCC-A-ATGAGAGATATCAT
451 ACAAACGATC-TGTGGCCACGTTTAATTTTCATCTATCATGTAATGCCAACAGGAG-GATATCAT
* * * * *
2108823 TTACCCATGTCTTAGGCTATGGATTCAACTACTGTGAATGATGCTACATGCTGCATAAGTCATAT
514 TTACCCATGTCTTAGGCTATGAATTCAACTACTGTGAATGACGCTACATACTACAGAAGTCATAT
* **
2108888 ACCCAACGGACTAGCTTTTGGTTCCTTATCTATTTAAACTCAGGTTTTTACTTACATCAAAGTAT
579 ACCCAACGCACTAGCTTTCAGTTCCTTATCTATTTAAACTCAGGTTTTTACTTACATCAAAGTAT
* *
2108953 ACAAGTCACGCATACATAGTCCATCATCCATTCAGGATT-ATGGTAGGTCGCACTATGAACGTCA
644 ACAAGTCACACATACATAGTCCATCATCCATTCAAGATTAAT-GTAGGTCGCACTATGAACGTCA
* * * * *
2109017 CAAGTAAATAAACCCATAAATAAATTTAAGATCTTTTCTACTTGGGTCTT-GTCCGATTTACTGT
708 CAAGTAAATAAACCCATAAACAAATTCAAGATCTATTCTACTTGGGTCTTGGT-CGATGTACTAT
* * * *
2109081 CAATCCAATCAGTCATATCTATGTCTCTATCTTCTAAGAGTCATCCACTCCGATACTCAAGACAA
772 CAATCCAATCAGTCACATCTATGTCTCTATCTTCTAAGAATCATCCACTCCAATACTCAAGAAAA
* * * * *
2109146 AGCATCTCCCCAACTGGACTTGATGGATGGCATATTAGTCTTTCAATCGATTTGCTCA-TTCTCA
1 AGCATCTCCCCAATTGGACTTGATAGACGACATATTAATCTTTCAATCGATTTGCTCATTTCT-A
* * *
2109210 ATTAGACTAGGGACATGTTTAGGTTCATCTAATAATATAAGTTGTCTTTCCGTATTACGAA-C-A
65 ATTAGACTAAGGACATGTTTAGGTTCATCTAATAATATAAGTTGTCTTTTCGTATTAC-AATCTG
* * * * *
2109273 AGCCACATAATATCGCTTAATATTAG-CTAAACATTAGATAACCAATGAGCTAATATTTGCTTCC
129 A-CCACATAATATCGCTTAGTATTAGTTTAAACATTAGACAACCAGTGAGC-AATATTTGCTTCT
* * * * *
2109337 ATTTTGATTTT-CATGCAAAAACAATTAAGGACAATATAGAAATGGTATTAATGTAATTCATGAA
192 ATTTTG-TTTTGCATGCAAAAACCATTAAAGACAATATACAAAGGGAATTAATGTAATTCATGAA
* * * * *
2109401 TAATTTTACTAAACCAATCTGTTCCAAAACA-TACAAGTGTACA-AACGAATAACCTACACTTAG
256 TAATTTTA-TTAACCAATCTGTTCGAAAAAATTACAAGTGTACATAAC-AAAAAACTACACTTAG
*
2109464 GGCATCAAATCCAACAA
319 GGCACCAAATCCAACAA
2109481 CTTCCTCTAA
Statistics
Matches: 1012, Mismatches: 145, Indels: 39
0.85 0.12 0.03
Matches are distributed among these distances:
835 26 0.03
836 5 0.00
837 12 0.01
838 73 0.07
839 554 0.55
840 340 0.34
841 1 0.00
842 1 0.00
ACGTcount: A:0.34, C:0.19, G:0.13, T:0.34
Consensus pattern (836 bp):
AGCATCTCCCCAATTGGACTTGATAGACGACATATTAATCTTTCAATCGATTTGCTCATTTCTAA
TTAGACTAAGGACATGTTTAGGTTCATCTAATAATATAAGTTGTCTTTTCGTATTACAATCTGAC
CACATAATATCGCTTAGTATTAGTTTAAACATTAGACAACCAGTGAGCAATATTTGCTTCTATTT
TGTTTTGCATGCAAAAACCATTAAAGACAATATACAAAGGGAATTAATGTAATTCATGAATAATT
TTATTAACCAATCTGTTCGAAAAAATTACAAGTGTACATAACAAAAAACTACACTTAGGGCACCA
AATCCAACAATTAGGATAAATCCGTTCTCCCAATATGATCCTATTTTATCTCATGATAACCATTA
CATCTACCTTCATGAAAAGTCAATTACTACCAAATAGTAATTAAGTCACCCATCACAAAGACAAA
CGATCTGTGGCCACGTTTAATTTTCATCTATCATGTAATGCCAACAGGAGGATATCATTTACCCA
TGTCTTAGGCTATGAATTCAACTACTGTGAATGACGCTACATACTACAGAAGTCATATACCCAAC
GCACTAGCTTTCAGTTCCTTATCTATTTAAACTCAGGTTTTTACTTACATCAAAGTATACAAGTC
ACACATACATAGTCCATCATCCATTCAAGATTAATGTAGGTCGCACTATGAACGTCACAAGTAAA
TAAACCCATAAACAAATTCAAGATCTATTCTACTTGGGTCTTGGTCGATGTACTATCAATCCAAT
CAGTCACATCTATGTCTCTATCTTCTAAGAATCATCCACTCCAATACTCAAGAAAA
Found at i:2115523 original size:20 final size:20
Alignment explanation
Indices: 2115495--2115534 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
2115485 ACCTAATGTA
*
2115495 TATGGCCTTGATTTTAGCCG
1 TATGACCTTGATTTTAGCCG
2115515 TATGACCTTGATTTTAGCCG
1 TATGACCTTGATTTTAGCCG
2115535 AGGAGCTTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.17, C:0.20, G:0.23, T:0.40
Consensus pattern (20 bp):
TATGACCTTGATTTTAGCCG
Found at i:2119335 original size:22 final size:22
Alignment explanation
Indices: 2119307--2119358 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
2119297 TCCATTTTCC
*
2119307 CTTCTTCTCCT-CTTCTTCTTTT
1 CTTCTTCTCCTCCAT-TTCTTTT
*
2119329 CTTCTTCTTCTCCATTTCTTTT
1 CTTCTTCTCCTCCATTTCTTTT
*
2119351 ATTCTTCT
1 CTTCTTCT
2119359 TTTTACCCTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
22 24 0.92
23 2 0.08
ACGTcount: A:0.04, C:0.33, G:0.00, T:0.63
Consensus pattern (22 bp):
CTTCTTCTCCTCCATTTCTTTT
Found at i:2119559 original size:30 final size:31
Alignment explanation
Indices: 2119494--2119563 Score: 81
Period size: 31 Copynumber: 2.3 Consensus size: 31
2119484 ACTGTTAATA
*
2119494 AGTGACTGATTTGTCACTTTTTAATAACGAT
1 AGTGACTGATTTGTCACTTTTTAATAAAGAT
* * *
2119525 AGTGACTGTTTTGTCA-TTTTT-CTAAAGTT
1 AGTGACTGATTTGTCACTTTTTAATAAAGAT
2119554 GAGTGACTGA
1 -AGTGACTGA
2119564 AATGAAACCA
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
29 5 0.15
30 13 0.39
31 15 0.45
ACGTcount: A:0.26, C:0.11, G:0.20, T:0.43
Consensus pattern (31 bp):
AGTGACTGATTTGTCACTTTTTAATAAAGAT
Found at i:2120450 original size:8 final size:8
Alignment explanation
Indices: 2120437--2120464 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
2120427 TTTTCAAAAA
2120437 TTATTATT
1 TTATTATT
2120445 TTATTATT
1 TTATTATT
2120453 TTATTATT
1 TTATTATT
2120461 TTAT
1 TTAT
2120465 AAATGGTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (8 bp):
TTATTATT
Found at i:2121115 original size:2 final size:2
Alignment explanation
Indices: 2121103--2121133 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
2121093 CAAACAGTCC
2121103 AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2121134 TGAAAGTGAT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2128016 original size:84 final size:84
Alignment explanation
Indices: 2127875--2128042 Score: 255
Period size: 84 Copynumber: 2.0 Consensus size: 84
2127865 TTTACCTTAG
** * * *
2127875 AAATCTTAAAGGTTTCTTAATTTCTCCAAGATTGGGTTTCTCTTTCAACACAAGCTCAAGAATTA
1 AAATCTTAAACATTACTTAACTCCTCCAAGATTGGGTTTCTCTTTCAACACAAGCTCAAGAATTA
2127940 TACGAGTGGCATAAAAAAA
66 TACGAGTGGCATAAAAAAA
* *
2127959 AAATCTTAAACATTACTTAACTCCTCGAAGATTGGGTTTCTCTTTCAACACAAGCTCAAGAATTC
1 AAATCTTAAACATTACTTAACTCCTCCAAGATTGGGTTTCTCTTTCAACACAAGCTCAAGAATTA
* *
2128024 TATGGGTGGCATAAAAAAA
66 TACGAGTGGCATAAAAAAA
2128043 TCAGGGTTGC
Statistics
Matches: 75, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
84 75 1.00
ACGTcount: A:0.37, C:0.18, G:0.14, T:0.31
Consensus pattern (84 bp):
AAATCTTAAACATTACTTAACTCCTCCAAGATTGGGTTTCTCTTTCAACACAAGCTCAAGAATTA
TACGAGTGGCATAAAAAAA
Found at i:2129482 original size:2 final size:2
Alignment explanation
Indices: 2129475--2129540 Score: 53
Period size: 2 Copynumber: 32.5 Consensus size: 2
2129465 AAAGTAGACC
* * * *
2129475 AT AT AT AT GAT AT AT AT AT AT -T AC AT AT AT AT AT AG AG AT TT
1 AT AT AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* *
2129517 AT AT GT AT AT AT AT GAC AT AT AT A
1 AT AT AT AT AT AT AT -AT AT AT AT A
2129541 CATAGATAAA
Statistics
Matches: 51, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
1 1 0.02
2 47 0.92
3 3 0.06
ACGTcount: A:0.45, C:0.03, G:0.08, T:0.44
Consensus pattern (2 bp):
AT
Found at i:2130876 original size:3 final size:3
Alignment explanation
Indices: 2130868--2130905 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
2130858 AAGAGGTCTG
2130868 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
2130906 AATACCTACT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:2133442 original size:129 final size:127
Alignment explanation
Indices: 2133044--2133467 Score: 455
Period size: 129 Copynumber: 3.3 Consensus size: 127
2133034 CACTAACAAT
* * *
2133044 AGTAAAGATTGAATCTTCGAGCTGTTTAACCTTTGATTTTTATTTTCA-GAAAAGAAAAG--AAA
1 AGTAAAGATTGAATCTTCGAGCTGTTTAACCTTTGCTTTGTATTATCAGGAAAAGAAAAGAAAAA
*
2133106 AGGCCTGCTTGGTCCCTTTACCTAAGAAAATGCTATTGCTGATTGGTATTCAATCACCAGCAAG
66 AGGCCTGCTTGGTCCC-TT-CCTAAGAAAATGCTCTTGCTGATTGGTATTCAATCACCAGCAAG
* *
2133170 AGTAAAGATTGAATCTTCGAGCTGTTTAACCTTTGCTTTTGTGTTATCAGAAAAAGAAAGAAGAA
1 AGTAAAGATTGAATCTTCGAGCTGTTTAACCTTTGC-TTTGTATTATCAGGAAAAG-AA-AAGAA
* * * * *
2133235 AAATGGCCTGCTTGGTACCCAT-CTAAGAAATTGCTCTTGCTGATTGATATTCGATCACCAGCAA
63 AAAAGGCCTGCTTGGT-CCCTTCCTAAGAAAATGCTCTTGCTGATTGGTATTCAATCACCAGCAA
2133299 G
127 G
* * * * * *
2133300 GGTAAAGACTGAATCTTTGAGCTGTTTAACCTTTGCTTAGAATTCTCAGGAAAAGAAAAGGAAAA
1 AGTAAAGATTGAATCTTCGAGCTGTTTAACCTTTGCTTTGTATTATCAGGAAAAGAAAA-GAAAA
* * ** ** *
2133365 AAGGCCAT-CTTGTTGTCCCTGCCT-AGAAAGTGCTCCAGCTGATTGGTGGTCAATCACTAGCAA
65 AAGGCC-TGCTTG--GTCCCTTCCTAAGAAAATGCTCTTGCTGATTGGTATTCAATCACCAGCAA
2133428 G
127 G
* * ** *
2133429 AGCAAACATTGAATCTTCGAGCCATTTAGCCTTTGCTTT
1 AGTAAAGATTGAATCTTCGAGCTGTTTAACCTTTGCTTT
2133468 CTGTTCCATA
Statistics
Matches: 247, Mismatches: 39, Indels: 21
0.80 0.13 0.07
Matches are distributed among these distances:
126 35 0.14
127 11 0.04
128 21 0.09
129 82 0.33
130 79 0.32
132 16 0.06
133 3 0.01
ACGTcount: A:0.31, C:0.18, G:0.20, T:0.31
Consensus pattern (127 bp):
AGTAAAGATTGAATCTTCGAGCTGTTTAACCTTTGCTTTGTATTATCAGGAAAAGAAAAGAAAAA
AGGCCTGCTTGGTCCCTTCCTAAGAAAATGCTCTTGCTGATTGGTATTCAATCACCAGCAAG
Found at i:2136360 original size:21 final size:20
Alignment explanation
Indices: 2136334--2136381 Score: 60
Period size: 22 Copynumber: 2.3 Consensus size: 20
2136324 TTTTTGATTA
2136334 ATTTTTAAAAGTTTAATAAAT
1 ATTTTTAAAAGTTTAA-AAAT
* *
2136355 ATTTTTTATAATTTTAAAAAT
1 A-TTTTTAAAAGTTTAAAAAT
2136376 ATTTTT
1 ATTTTT
2136382 TAAATTTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 5 0.21
21 6 0.25
22 13 0.54
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (20 bp):
ATTTTTAAAAGTTTAAAAAT
Found at i:2136390 original size:21 final size:21
Alignment explanation
Indices: 2136334--2136389 Score: 78
Period size: 21 Copynumber: 2.7 Consensus size: 21
2136324 TTTTTGATTA
* *
2136334 ATTTTTAAAAGTTTAATAAAT
1 ATTTTTTAAATTTTAATAAAT
2136355 ATTTTTTATAATTTTAA-AAAT
1 ATTTTTTA-AATTTTAATAAAT
2136376 ATTTTTTAAATTTT
1 ATTTTTTAAATTTT
2136390 TTTAATTTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
20 6 0.19
21 19 0.59
22 7 0.22
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (21 bp):
ATTTTTTAAATTTTAATAAAT
Found at i:2139934 original size:29 final size:30
Alignment explanation
Indices: 2139878--2139940 Score: 92
Period size: 29 Copynumber: 2.1 Consensus size: 30
2139868 TTCTTATTTA
2139878 AACACTTTGTAAAAGTTAGGCCCTTATATG
1 AACACTTTGTAAAAGTTAGGCCCTTATATG
* * *
2139908 AACACTTTG-ACAGGTTTGGCCCTTATATG
1 AACACTTTGTAAAAGTTAGGCCCTTATATG
2139937 AACA
1 AACA
2139941 ACCCCTAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
29 21 0.70
30 9 0.30
ACGTcount: A:0.32, C:0.19, G:0.17, T:0.32
Consensus pattern (30 bp):
AACACTTTGTAAAAGTTAGGCCCTTATATG
Found at i:2144772 original size:44 final size:46
Alignment explanation
Indices: 2144670--2144782 Score: 142
Period size: 47 Copynumber: 2.5 Consensus size: 46
2144660 ATATATATTA
*
2144670 ATATATTTGTTATGCATGAAAATGAATTAATCTATAGCTGAATGTAT
1 ATATATTTGTTATGCATGAAAATGAATTAAACTATA-CTGAATGTAT
* *
2144717 ATGTAATTGTTATGCA-GAGAAATGAATTAAACTAT-C-GAATGTAT
1 ATATATTTGTTATGCATGA-AAATGAATTAAACTATACTGAATGTAT
*
2144761 ATATATTTGTTATACATTGAAA
1 ATATATTTGTTATGCA-TGAAA
2144783 TAAATTATTT
Statistics
Matches: 57, Mismatches: 6, Indels: 8
0.80 0.08 0.11
Matches are distributed among these distances:
44 21 0.37
45 3 0.05
46 4 0.07
47 29 0.51
ACGTcount: A:0.40, C:0.06, G:0.15, T:0.39
Consensus pattern (46 bp):
ATATATTTGTTATGCATGAAAATGAATTAAACTATACTGAATGTAT
Found at i:2144783 original size:44 final size:45
Alignment explanation
Indices: 2144670--2144789 Score: 136
Period size: 44 Copynumber: 2.6 Consensus size: 45
2144660 ATATATATTA
*
2144670 ATATATTTGTTATGCATGAAAATGAATTAATCTATAGCTGAATGTAT
1 ATATATTTGTTATGCATG-AAATGAATTAAACTATA-CTGAATGTAT
* * *
2144717 ATGTAATTGTTATGCAGAGAAATGAATTAAACTAT-C-GAATGTAT
1 ATATATTTGTTATGCA-TGAAATGAATTAAACTATACTGAATGTAT
* *
2144761 ATATATTTGTTATACATTGAAATAAATTA
1 ATATATTTGTTATGCA-TGAAATGAATTA
2144790 TTTGAAATTA
Statistics
Matches: 62, Mismatches: 10, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
44 31 0.50
45 1 0.02
47 29 0.47
48 1 0.02
ACGTcount: A:0.41, C:0.06, G:0.14, T:0.39
Consensus pattern (45 bp):
ATATATTTGTTATGCATGAAATGAATTAAACTATACTGAATGTAT
Found at i:2144827 original size:61 final size:61
Alignment explanation
Indices: 2144753--2144888 Score: 263
Period size: 61 Copynumber: 2.2 Consensus size: 61
2144743 TTAAACTATC
2144753 GAATGTATATATATTTGTTATACATTGAAATAAATTATTTGAAATTACATAGGTTATGGCT
1 GAATGTATATATATTTGTTATACATTGAAATAAATTATTTGAAATTACATAGGTTATGGCT
2144814 GAATGTATATATATTTGTTATACATTGAAATAAATTATTTGAAATTACATAGGTTATGGCT
1 GAATGTATATATATTTGTTATACATTGAAATAAATTATTTGAAATTACATAGGTTATGGCT
*
2144875 GAATGTGTATATAT
1 GAATGTATATATAT
2144889 ATATATNNNN
Statistics
Matches: 74, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
61 74 1.00
ACGTcount: A:0.38, C:0.04, G:0.15, T:0.43
Consensus pattern (61 bp):
GAATGTATATATATTTGTTATACATTGAAATAAATTATTTGAAATTACATAGGTTATGGCT
Found at i:2145005 original size:2 final size:2
Alignment explanation
Indices: 2144998--2145026 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
2144988 NNNNNNNTAG
2144998 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2145027 TTGTTATACA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2145090 original size:47 final size:49
Alignment explanation
Indices: 2145016--2145132 Score: 157
Period size: 47 Copynumber: 2.4 Consensus size: 49
2145006 TATATATATA
* ** * *
2145016 TATATATATATTTGTTATACATTGAAATGAATTAATCTATCGCTGAATG
1 TATATATATATTTGTTATGCAGAGAAATGAATTAAACTATCGCCGAATG
* *
2145065 TATATGTA-A-TTGTTATGCAGAGAAATGAATTAAACTATGGCCGAATG
1 TATATATATATTTGTTATGCAGAGAAATGAATTAAACTATCGCCGAATG
2145112 TATATATATATTTGTTATGCA
1 TATATATATATTTGTTATGCA
2145133 TTGAAATAAA
Statistics
Matches: 58, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
47 39 0.67
48 2 0.03
49 17 0.29
ACGTcount: A:0.37, C:0.08, G:0.15, T:0.40
Consensus pattern (49 bp):
TATATATATATTTGTTATGCAGAGAAATGAATTAAACTATCGCCGAATG
Found at i:2145297 original size:41 final size:41
Alignment explanation
Indices: 2145250--2145365 Score: 144
Period size: 41 Copynumber: 2.8 Consensus size: 41
2145240 TTTTGTAAGT
2145250 TCGGGCTTTATGCCTAGAAGGCTCTGTGCCGGTGAAATGTA
1 TCGGGCTTTATGCCTAGAAGGCTCTGTGCCGGTGAAATGTA
* * * *
2145291 TTGGGCTTTATGCCTAGCAGACTCTGTGCCAGTGAAATGTA
1 TCGGGCTTTATGCCTAGAAGGCTCTGTGCCGGTGAAATGTA
* * * *
2145332 TCGAGCTTTGTGCCTAGCAA-GCTTTATGCCGGTG
1 TCGGGCTTTATGCCTAG-AAGGCTCTGTGCCGGTG
2145366 TTTTATATAA
Statistics
Matches: 62, Mismatches: 12, Indels: 2
0.82 0.16 0.03
Matches are distributed among these distances:
41 61 0.98
42 1 0.02
ACGTcount: A:0.19, C:0.21, G:0.29, T:0.31
Consensus pattern (41 bp):
TCGGGCTTTATGCCTAGAAGGCTCTGTGCCGGTGAAATGTA
Found at i:2149115 original size:68 final size:69
Alignment explanation
Indices: 2149025--2149159 Score: 202
Period size: 69 Copynumber: 2.0 Consensus size: 69
2149015 TGCAATAGAT
* * *
2149025 TTAATATTATATTTAAATTAATATTTATCTTAAT-ATTATTTTATTAAGTTAATATTAAAGTGAT
1 TTAATATTAAATTTAAATTAATATTTATCTTAATAAGTATTATATTAAGTTAATATTAAAGTGAT
2149089 TATC
66 TATC
* *
2149093 TTAATATTAAATTT-AATCTAATATTTATCTTGATAAGTATTATATTAATTTAATATTAAAGTGA
1 TTAATATTAAATTTAAAT-TAATATTTATCTTAATAAGTATTATATTAAGTTAATATTAAAGTGA
2149157 TTA
65 TTA
2149160 AGTTTAATCA
Statistics
Matches: 60, Mismatches: 5, Indels: 3
0.88 0.07 0.04
Matches are distributed among these distances:
67 3 0.05
68 28 0.47
69 29 0.48
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.51
Consensus pattern (69 bp):
TTAATATTAAATTTAAATTAATATTTATCTTAATAAGTATTATATTAAGTTAATATTAAAGTGAT
TATC
Found at i:2150829 original size:29 final size:29
Alignment explanation
Indices: 2150797--2150874 Score: 84
Period size: 31 Copynumber: 2.6 Consensus size: 29
2150787 TATGAATACT
* **
2150797 GGTACAAAGTACCTGATAATATAGTCACC
1 GGTACATAGTACCTGATAATATAACCACC
* * *
2150826 GGTACATAGCACCTAATATAATGTAACCACC
1 GGTACATAGTACCT--GATAATATAACCACC
2150857 GGTACATAGTACCTGATA
1 GGTACATAGTACCTGATA
2150875 CTTTAAACCC
Statistics
Matches: 39, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
29 15 0.38
31 24 0.62
ACGTcount: A:0.37, C:0.22, G:0.17, T:0.24
Consensus pattern (29 bp):
GGTACATAGTACCTGATAATATAACCACC
Found at i:2152836 original size:32 final size:32
Alignment explanation
Indices: 2152790--2152852 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
2152780 GGGAGGTTAA
*
2152790 TGTTCTTATTTATGTGTGTATATTTTGGTGAT
1 TGTTCTTATCTATGTGTGTATATTTTGGTGAT
2152822 TGTTCTTATCTATGTGTGTATATTTTGGTGA
1 TGTTCTTATCTATGTGTGTATATTTTGGTGA
2152853 AATGTTAAGC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.16, C:0.05, G:0.22, T:0.57
Consensus pattern (32 bp):
TGTTCTTATCTATGTGTGTATATTTTGGTGAT
Found at i:2158505 original size:42 final size:42
Alignment explanation
Indices: 2158420--2158517 Score: 117
Period size: 42 Copynumber: 2.3 Consensus size: 42
2158410 CGTTCAAGTA
* * *
2158420 AGTGAGTTACACGGCCTGGCACCCGAGCGTGTGTGACAACTC
1 AGTGAGTTACACGGCCTGGCACACGAGCGTATGGGACAACTC
* * * *
2158462 AGAT-AGTTACACGGCCTGGTACACGGGCGTATGGGGCATCTC
1 AG-TGAGTTACACGGCCTGGCACACGAGCGTATGGGACAACTC
2158504 AGTGAGTTACACGG
1 AGTGAGTTACACGG
2158518 GTTAGGGCAT
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
41 1 0.02
42 45 0.96
43 1 0.02
ACGTcount: A:0.22, C:0.24, G:0.33, T:0.20
Consensus pattern (42 bp):
AGTGAGTTACACGGCCTGGCACACGAGCGTATGGGACAACTC
Found at i:2159874 original size:18 final size:19
Alignment explanation
Indices: 2159848--2159883 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
2159838 GTGTGACCCC
*
2159848 TGTTTTCCC-AAATTTTCA
1 TGTTCTCCCAAAATTTTCA
2159866 TGTTCTCCCAAAATTTTC
1 TGTTCTCCCAAAATTTTC
2159884 TTATTTGTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.22, C:0.25, G:0.06, T:0.47
Consensus pattern (19 bp):
TGTTCTCCCAAAATTTTCA
Found at i:2160445 original size:38 final size:38
Alignment explanation
Indices: 2160327--2160437 Score: 159
Period size: 38 Copynumber: 2.9 Consensus size: 38
2160317 ACATGATTTG
* * * *
2160327 CATGCCTACTGTCAATAATGAATTGAGTACATATTAAA
1 CATGTCTACTGTTAATAATGAATTGAGCACATGTTAAA
* *
2160365 CATGTCTACTGTTAATGATAAATTGAGCACATGTTAAA
1 CATGTCTACTGTTAATAATGAATTGAGCACATGTTAAA
*
2160403 CATGTCTACTGTTAATAACGAATTGAGCACATGTT
1 CATGTCTACTGTTAATAATGAATTGAGCACATGTT
2160438 GTACATGTTT
Statistics
Matches: 64, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
38 64 1.00
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.33
Consensus pattern (38 bp):
CATGTCTACTGTTAATAATGAATTGAGCACATGTTAAA
Found at i:2163594 original size:38 final size:38
Alignment explanation
Indices: 2163552--2163676 Score: 151
Period size: 38 Copynumber: 3.3 Consensus size: 38
2163542 ACATAATTTG
* * * *
2163552 CATGTCTATTGTTAATAATAAATTGAGTACGTGTTACA
1 CATGTCTACTGTTAATAATGAATTGAGTACATGTTAAA
* *
2163590 CATGTCTACTGTTAATGATGAATTGAGTATATGTTAAA
1 CATGTCTACTGTTAATAATGAATTGAGTACATGTTAAA
* ** **
2163628 CATGTCTACTATTAATAATGAATTGAACACATGTTGTA
1 CATGTCTACTGTTAATAATGAATTGAGTACATGTTAAA
2163666 CATGTCTACTG
1 CATGTCTACTG
2163677 CTAGTGTTGA
Statistics
Matches: 73, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
38 73 1.00
ACGTcount: A:0.34, C:0.12, G:0.16, T:0.38
Consensus pattern (38 bp):
CATGTCTACTGTTAATAATGAATTGAGTACATGTTAAA
Found at i:2163964 original size:44 final size:44
Alignment explanation
Indices: 2163811--2163968 Score: 136
Period size: 45 Copynumber: 3.5 Consensus size: 44
2163801 TTATTTGCAA
* * * * **
2163811 GATTTTTTTGTGTATCCACAGCCAAAGGTAGATTCTAATTTTGG
1 GATTTTGTTGTGCATCCACAGCCAGAGGTAGATTCTAACTGCGG
* ** * * * * * *
2163855 GATAATTGTTGTGTTTTCACAGCTAGAGGTTGATTTTATCTGCGA
1 GAT-TTTGTTGTGCATCCACAGCCAGAGGTAGATTCTAACTGCGG
*
2163900 GATTTTTGTTGTGCATCCATAGCCAGAGGTAGATTCTAACTGCGG
1 GA-TTTTGTTGTGCATCCACAGCCAGAGGTAGATTCTAACTGCGG
* *
2163945 GATTTTGTTGTGCGTCCATAGCCA
1 GATTTTGTTGTGCATCCACAGCCA
2163969 CTAGCAGTTT
Statistics
Matches: 88, Mismatches: 24, Indels: 4
0.76 0.21 0.03
Matches are distributed among these distances:
44 24 0.27
45 63 0.72
46 1 0.01
ACGTcount: A:0.22, C:0.15, G:0.24, T:0.39
Consensus pattern (44 bp):
GATTTTGTTGTGCATCCACAGCCAGAGGTAGATTCTAACTGCGG
Found at i:2169604 original size:43 final size:44
Alignment explanation
Indices: 2169540--2169660 Score: 124
Period size: 43 Copynumber: 2.8 Consensus size: 44
2169530 TTACTGATCA
* * * *
2169540 AGCAC-TTATGTGCCGACTATTGTTACTGTTACTGTACTGA-TC
1 AGCACTTTGTGTGTCGAATATTGTTACTGTTACTGTACAGATTC
* *
2169582 -GATACTTTGTGTGTCGAATATTGTTACTGTTACTATTACAGATTC
1 AG-CACTTTGTGTGTCGAATATTGTTACTGTTACT-GTACAGATTC
* *
2169627 AGCACTTTGTGTGTTGAATACTGTTACT-TTACTG
1 AGCACTTTGTGTGTCGAATATTGTTACTGTTACTG
2169661 CTACCGTTAC
Statistics
Matches: 64, Mismatches: 10, Indels: 9
0.77 0.12 0.11
Matches are distributed among these distances:
41 1 0.02
42 2 0.03
43 25 0.39
44 10 0.16
45 25 0.39
46 1 0.02
ACGTcount: A:0.22, C:0.17, G:0.19, T:0.42
Consensus pattern (44 bp):
AGCACTTTGTGTGTCGAATATTGTTACTGTTACTGTACAGATTC
Found at i:2175624 original size:16 final size:16
Alignment explanation
Indices: 2175603--2175634 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
2175593 GAAAAAGATT
2175603 GCTTAATTGGGTTGAA
1 GCTTAATTGGGTTGAA
2175619 GCTTAATTGGGTTGAA
1 GCTTAATTGGGTTGAA
2175635 AGATTATCGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.25, C:0.06, G:0.31, T:0.38
Consensus pattern (16 bp):
GCTTAATTGGGTTGAA
Found at i:2191481 original size:18 final size:18
Alignment explanation
Indices: 2191453--2191497 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
2191443 CGTTCGTTTC
*
2191453 CAAAACATTATTC-ATTT
1 CAAAACGTTATTCAATTT
*
2191470 ACAAATCGTTATTCAATTT
1 -CAAAACGTTATTCAATTT
2191489 CAAAACGTT
1 CAAAACGTT
2191498 TTCTTATTGC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
18 19 0.83
19 4 0.17
ACGTcount: A:0.40, C:0.18, G:0.04, T:0.38
Consensus pattern (18 bp):
CAAAACGTTATTCAATTT
Found at i:2194771 original size:46 final size:46
Alignment explanation
Indices: 2194704--2195086 Score: 632
Period size: 46 Copynumber: 8.4 Consensus size: 46
2194694 TGATCAGTGG
2194704 CAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGAT
1 CAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGAT
* *
2194750 CAAGTTACAAAGTGATAAGTGGTAGCTTTAGCTACACTTACCTGAT
1 CAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGAT
* *
2194796 CAAGTTACAAAATGATAAGTGGTAGCTTTAGCTACACTTATCTGAT
1 CAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGAT
2194842 CAAGTGACAAAGTGATAAGTGGTAGC-TTAGCTACACTTATCTGAT
1 CAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGAT
*
2194887 CAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACTCTTATCTGAT
1 CAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGAT
*
2194933 CAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACTCTTATCTGAT
1 CAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGAT
*
2194979 CAAGTGACAAAGTGATAAGTGGTAGC-CTAGCTACACTTATCTGAT
1 CAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGAT
* * *
2195024 CAAATGACAAAGTGATAAGTGGTAGC-CTAGCTACACTTATCTGGT
1 CAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGAT
*
2195069 C-AGGGAC-AAGTGATAAGT
1 CAAGTGACAAAGTGATAAGT
2195087 TATCATACGT
Statistics
Matches: 323, Mismatches: 13, Indels: 5
0.95 0.04 0.01
Matches are distributed among these distances:
43 11 0.03
44 4 0.01
45 106 0.33
46 202 0.63
ACGTcount: A:0.33, C:0.16, G:0.22, T:0.30
Consensus pattern (46 bp):
CAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGAT
Found at i:2194932 original size:91 final size:92
Alignment explanation
Indices: 2194704--2195086 Score: 632
Period size: 91 Copynumber: 4.2 Consensus size: 92
2194694 TGATCAGTGG
*
2194704 CAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTTACAAAGTGATAAG
1 CAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAG
*
2194769 TGGTAGCTTTAGCTACACTTACCTGAT
66 TGGTAGCTTTAGCTACACTTATCTGAT
* *
2194796 CAAGTTACAAAATGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAG
1 CAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAG
2194861 TGGTAGC-TTAGCTACACTTATCTGAT
66 TGGTAGCTTTAGCTACACTTATCTGAT
*
2194887 CAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACTCTTATCTGATCAAGTGACAAAGTGATAAG
1 CAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAG
*
2194952 TGGTAGCTTTAGCTACTCTTATCTGAT
66 TGGTAGCTTTAGCTACACTTATCTGAT
* *
2194979 CAAGTGACAAAGTGATAAGTGGTAGC-CTAGCTACACTTATCTGATCAAATGACAAAGTGATAAG
1 CAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAG
* *
2195043 TGGTAGC-CTAGCTACACTTATCTGGT
66 TGGTAGCTTTAGCTACACTTATCTGAT
*
2195069 C-AGGGAC-AAGTGATAAGT
1 CAAGTGACAAAGTGATAAGT
2195087 TATCATACGT
Statistics
Matches: 275, Mismatches: 15, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
88 11 0.04
89 5 0.02
90 17 0.06
91 129 0.47
92 113 0.41
ACGTcount: A:0.33, C:0.16, G:0.22, T:0.30
Consensus pattern (92 bp):
CAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAG
TGGTAGCTTTAGCTACACTTATCTGAT
Found at i:2194951 original size:137 final size:137
Alignment explanation
Indices: 2194704--2195086 Score: 637
Period size: 137 Copynumber: 2.8 Consensus size: 137
2194694 TGATCAGTGG
*
2194704 CAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTTACAAAGTGATAAG
1 CAAGTGACAAAGTGATAAGTGGTAGC-TTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAG
* * *
2194769 TGGTAGCTTTAGCTACACTTACCTGATCAAGTTACAAAATGATAAGTGGTAGCTTTAGCTACACT
65 TGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACT
2194834 TATCTGAT
130 TATCTGAT
2194842 CAAGTGACAAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGT
1 CAAGTGACAAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGT
* *
2194907 GGTAGCTTTAGCTACTCTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACTCTT
66 GGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTT
2194972 ATCTGAT
131 ATCTGAT
* *
2194979 CAAGTGACAAAGTGATAAGTGGTAGCCTAGCTACACTTATCTGATCAAATGACAAAGTGATAAGT
1 CAAGTGACAAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGT
* * *
2195044 GGTAGC-CTAGCTACACTTATCTGGTC-AGGGAC-AAGTGATAAGT
66 GGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGT
2195087 TATCATACGT
Statistics
Matches: 233, Mismatches: 12, Indels: 4
0.94 0.05 0.02
Matches are distributed among these distances:
134 11 0.05
135 5 0.02
136 17 0.07
137 174 0.75
138 26 0.11
ACGTcount: A:0.33, C:0.16, G:0.22, T:0.30
Consensus pattern (137 bp):
CAAGTGACAAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGT
GGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTT
ATCTGAT
Found at i:2195666 original size:41 final size:43
Alignment explanation
Indices: 2195605--2195684 Score: 119
Period size: 41 Copynumber: 1.9 Consensus size: 43
2195595 TAAACATTAA
*
2195605 AAAATTATTTTAAAAATAAAAAAT-AAAA-TAAAAATTATTTT
1 AAAAGTATTTTAAAAATAAAAAATAAAAATTAAAAATTATTTT
* *
2195646 AAAAGTATTTTAAAATTAAAAATTAAAAATTAAAAATTA
1 AAAAGTATTTTAAAAATAAAAAATAAAAATTAAAAATTA
2195685 AAAATATATA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
41 21 0.62
42 4 0.12
43 9 0.26
ACGTcount: A:0.64, C:0.00, G:0.01, T:0.35
Consensus pattern (43 bp):
AAAAGTATTTTAAAAATAAAAAATAAAAATTAAAAATTATTTT
Found at i:2195669 original size:7 final size:7
Alignment explanation
Indices: 2195657--2195689 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
2195647 AAAGTATTTT
2195657 AAAATTA
1 AAAATTA
2195664 AAAATTA
1 AAAATTA
2195671 AAAATTA
1 AAAATTA
2195678 AAAATTA
1 AAAATTA
2195685 AAAAT
1 AAAAT
2195690 ATATATTTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (7 bp):
AAAATTA
Found at i:2196267 original size:17 final size:17
Alignment explanation
Indices: 2196236--2196269 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
2196226 CTATGATGTT
2196236 CGCCCTGTAAGCCCACA
1 CGCCCTGTAAGCCCACA
2196253 CGCCCGTGTAA-CCCACA
1 CGCCC-TGTAAGCCCACA
2196270 TGACCCAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.24, C:0.47, G:0.18, T:0.12
Consensus pattern (17 bp):
CGCCCTGTAAGCCCACA
Found at i:2200364 original size:21 final size:21
Alignment explanation
Indices: 2200340--2200379 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
2200330 CAGACATGGT
2200340 CGTGTGACTA-TCCCATACGTC
1 CGTGTGACTACT-CCATACGTC
*
2200361 CGTGTGGCTACTCCATACG
1 CGTGTGACTACTCCATACG
2200380 CCTATGTACT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 16 0.94
22 1 0.06
ACGTcount: A:0.17, C:0.33, G:0.23, T:0.28
Consensus pattern (21 bp):
CGTGTGACTACTCCATACGTC
Found at i:2204972 original size:35 final size:35
Alignment explanation
Indices: 2204914--2205102 Score: 297
Period size: 35 Copynumber: 5.4 Consensus size: 35
2204904 ATGTTATCTA
* *
2204914 GTGTGTTGGATGGTACTGGCTCTTATGAACAATTG
1 GTGTGTTGGATGGTACTGGCTCTTATGAGCAACTG
** * ** *
2204949 GTGTACTAGATGGTACTAACTCTTATGAGCAACTA
1 GTGTGTTGGATGGTACTGGCTCTTATGAGCAACTG
2204984 GTGTGTTGGATGGTACTGGCTCTTATGAGCAACTG
1 GTGTGTTGGATGGTACTGGCTCTTATGAGCAACTG
2205019 GTGTGTTGGATGGTACTGGCTCTTATGAGCAACTG
1 GTGTGTTGGATGGTACTGGCTCTTATGAGCAACTG
*
2205054 GTGTGTTGGATGGTACTGGCTCTTATGAGCATCTG
1 GTGTGTTGGATGGTACTGGCTCTTATGAGCAACTG
2205089 GTGTGTTGGATGGT
1 GTGTGTTGGATGGT
2205103 TAACAGTGTA
Statistics
Matches: 139, Mismatches: 15, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
35 139 1.00
ACGTcount: A:0.19, C:0.13, G:0.32, T:0.35
Consensus pattern (35 bp):
GTGTGTTGGATGGTACTGGCTCTTATGAGCAACTG
Found at i:2208793 original size:102 final size:102
Alignment explanation
Indices: 2208615--2208814 Score: 346
Period size: 102 Copynumber: 2.0 Consensus size: 102
2208605 AATGTTTTTG
* *
2208615 TATGTGTTTGAAGCCTTGTGATCACGTGTTTTGTATTGGTTTAGGTACCTATGCAATTAGGTGAA
1 TATGTGTTTGAAGCCTTGTGATCACATGTTTTGTATTGGTTTAGATACCTATGCAATTAGGTGAA
* *
2208680 ATTTAAGCTTGAAGTAGGACATTTTTTGGCTCATACA
66 ATTTAACCTTGAAGTAGGACATTTTTGGGCTCATACA
*
2208717 TATGTGTTTGAAGCCTTGTGATCACATGTTTTGTATTGGTTTAGATACCTATGCAATTGGGTGAA
1 TATGTGTTTGAAGCCTTGTGATCACATGTTTTGTATTGGTTTAGATACCTATGCAATTAGGTGAA
*
2208782 ATTTGACCTTGAAGTAGGACATTTTTGGGCTCA
66 ATTTAACCTTGAAGTAGGACATTTTTGGGCTCA
2208815 CGCGGCTTGA
Statistics
Matches: 92, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
102 92 1.00
ACGTcount: A:0.24, C:0.12, G:0.24, T:0.40
Consensus pattern (102 bp):
TATGTGTTTGAAGCCTTGTGATCACATGTTTTGTATTGGTTTAGATACCTATGCAATTAGGTGAA
ATTTAACCTTGAAGTAGGACATTTTTGGGCTCATACA
Found at i:2214453 original size:17 final size:16
Alignment explanation
Indices: 2214416--2214454 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
2214406 AATAAACAAT
2214416 TAAA-TAAATTGGAAA
1 TAAATTAAATTGGAAA
2214431 TAAAATTAAATTGGGAAA
1 T-AAATTAAATT-GGAAA
2214449 TAAATT
1 TAAATT
2214455 TGGATTTTGT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
15 1 0.05
16 3 0.14
17 11 0.52
18 6 0.29
ACGTcount: A:0.56, C:0.00, G:0.13, T:0.31
Consensus pattern (16 bp):
TAAATTAAATTGGAAA
Found at i:2218410 original size:22 final size:22
Alignment explanation
Indices: 2218382--2218435 Score: 81
Period size: 22 Copynumber: 2.5 Consensus size: 22
2218372 GCAAACTGAT
*
2218382 CATTTCTATTAAAAATTTCATC
1 CATTTCTATTAAAAATTTCATA
* *
2218404 CATTTCTGTTAAAAATTTTATA
1 CATTTCTATTAAAAATTTCATA
2218426 CATTTCTATT
1 CATTTCTATT
2218436 GTTAAAATTT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.33, C:0.15, G:0.02, T:0.50
Consensus pattern (22 bp):
CATTTCTATTAAAAATTTCATA
Found at i:2224547 original size:60 final size:60
Alignment explanation
Indices: 2224468--2224586 Score: 168
Period size: 60 Copynumber: 2.0 Consensus size: 60
2224458 ATTTGAGAGG
* * * *
2224468 CCTTTATTTGAGCACTTTTA-AAAAGGCTAGGCCCTTCTCTGACCATTTTGAAAGGTTTGA
1 CCTTCATTTGAGCACTTTTATAAAA-GCTAGGCCCTTATATGACCATCTTGAAAGGTTTGA
* *
2224528 CCTTCATTTGAGCACTTTTATAAAAGTTAGGCTCTTATATGACCATCTTGAAAGGTTTG
1 CCTTCATTTGAGCACTTTTATAAAAGCTAGGCCCTTATATGACCATCTTGAAAGGTTTG
2224587 GTTCTTATAT
Statistics
Matches: 52, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
60 48 0.92
61 4 0.08
ACGTcount: A:0.26, C:0.18, G:0.18, T:0.38
Consensus pattern (60 bp):
CCTTCATTTGAGCACTTTTATAAAAGCTAGGCCCTTATATGACCATCTTGAAAGGTTTGA
Found at i:2225021 original size:6 final size:6
Alignment explanation
Indices: 2225010--2225038 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
2225000 CGGAGAAATT
2225010 ATTATG ATTATG ATTATG ATTATG ATTAT
1 ATTATG ATTATG ATTATG ATTATG ATTAT
2225039 TTTTGATAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.34, C:0.00, G:0.14, T:0.52
Consensus pattern (6 bp):
ATTATG
Found at i:2229768 original size:26 final size:27
Alignment explanation
Indices: 2229739--2229790 Score: 70
Period size: 28 Copynumber: 1.9 Consensus size: 27
2229729 TTTGTTTTTC
*
2229739 TATTTCCCA-AAATAAAATTCTCAATA
1 TATTTCCAATAAATAAAATTCTCAATA
*
2229765 TATTTCCAATTAAATAATATTCTCAA
1 TATTTCCAA-TAAATAAAATTCTCAA
2229791 GCCAATTCTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 8 0.36
28 14 0.64
ACGTcount: A:0.44, C:0.17, G:0.00, T:0.38
Consensus pattern (27 bp):
TATTTCCAATAAATAAAATTCTCAATA
Found at i:2230026 original size:57 final size:57
Alignment explanation
Indices: 2229952--2230130 Score: 236
Period size: 56 Copynumber: 3.1 Consensus size: 57
2229942 ATTTTCAGGT
* * *
2229952 CATTTTCTTTTTCATTTTGGAGAAAACCACATTCATTTTCAAATGATTCCATTTCTC
1 CATTTTCATTTTCATTTTGGAGAAAACCATAATCATTTTCAAATGATTCCATTTCTC
* * *
2230009 TATTTTCATTTTAATTTTGGAGAAAACCATAATCATTTTCAAATGATT-CATTTCCC
1 CATTTTCATTTTCATTTTGGAGAAAACCATAATCATTTTCAAATGATTCCATTTCTC
* * * *
2230065 CAATTCCATTTCCATTTTGGAGAAAACCATAATCATTTCCAAAT-ATTTCTCATTTCTC
1 CATTTTCATTTTCATTTTGGAGAAAACCATAATCATTTTCAAATGA-TTC-CATTTCTC
2230123 CATTTTCA
1 CATTTTCA
2230131 CAATTTCTAT
Statistics
Matches: 104, Mismatches: 15, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
55 1 0.01
56 47 0.45
57 43 0.41
58 13 0.12
ACGTcount: A:0.30, C:0.21, G:0.06, T:0.44
Consensus pattern (57 bp):
CATTTTCATTTTCATTTTGGAGAAAACCATAATCATTTTCAAATGATTCCATTTCTC
Done.